Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009175.1 Hibiscus syriacus cultivar Beakdansim tig00112738_pilon, whole genome shotgun sequence
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: 10629029
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 51
Found at i:819229 original size:16 final size:17
Alignment explanation
Indices: 819198--819231 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
819188 CATATTGCCG
819198 ACAAAATTTCACTATTC
1 ACAAAATTTCACTATTC
819215 ACAAAATTT-ACTATTC
1 ACAAAATTTCACTATTC
819231 A
1 A
819232 TGTGAATAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.35
Consensus pattern (17 bp):
ACAAAATTTCACTATTC
Found at i:819711 original size:36 final size:36
Alignment explanation
Indices: 819641--819754 Score: 169
Period size: 35 Copynumber: 3.2 Consensus size: 36
819631 ATCTCATTAT
* *
819641 CATTTTTC-AACAAACATCTACCAAACTTTGAAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTT-AAAAAC
*
819677 TATTTTTCAAAGAAACATTTACCAAACTTTAAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTAAAAAC
*
819713 CA-TTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTAAAAAC
819748 CATTTTT
1 CATTTTT
819755 TTAAAGTTGG
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
35 34 0.48
36 18 0.25
37 19 0.27
ACGTcount: A:0.44, C:0.20, G:0.04, T:0.32
Consensus pattern (36 bp):
CATTTTTCAAAGAAACATTTACCAAACTTTAAAAAC
Found at i:820521 original size:20 final size:20
Alignment explanation
Indices: 820496--820552 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
820486 TTGGTTCACG
*
820496 GAATGTAAAATTACCAGTGA
1 GAATGTAAGATTACCAGTGA
*
820516 GAATGTAAGATTACCAGTGG
1 GAATGTAAGATTACCAGTGA
820536 GAATGTAAGATTACCAG
1 GAATGTAAGATTACCAG
820553 GGAATATAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.40, C:0.11, G:0.25, T:0.25
Consensus pattern (20 bp):
GAATGTAAGATTACCAGTGA
Found at i:820750 original size:36 final size:35
Alignment explanation
Indices: 820710--820781 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 35
820700 GTTGAAAAAT
* *
820710 ATTTATATATTTTCTTTA-AAAATTTAAATTCATAAA
1 ATTTATATAATTT-TTTACAAAATTTAAAAT-ATAAA
820746 ATTTATATAATTTTTTACAAAATTTAAAATATAAA
1 ATTTATATAATTTTTTACAAAATTTAAAATATAAA
820781 A
1 A
820782 AGGTTTAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
35 10 0.30
36 23 0.70
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (35 bp):
ATTTATATAATTTTTTACAAAATTTAAAATATAAA
Found at i:821408 original size:29 final size:29
Alignment explanation
Indices: 821353--821408 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 29
821343 TTTCTATCTT
* * **
821353 TTTAAAAATTTATAAATTTAATTTTATCC
1 TTTAAAAATTTAAAAATTCAAAATTATCC
*
821382 TTTAAAATTTTAAAAATTCAAAATTAT
1 TTTAAAAATTTAAAAATTCAAAATTAT
821409 TTTTTTAACA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 22 1.00
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.48
Consensus pattern (29 bp):
TTTAAAAATTTAAAAATTCAAAATTATCC
Found at i:821592 original size:42 final size:42
Alignment explanation
Indices: 821545--821660 Score: 160
Period size: 42 Copynumber: 2.8 Consensus size: 42
821535 TTTCTTGAAA
* * ** *
821545 TTTCGTATTTATTTTATATAATTCGTTTTTCGAAAAATGTTT
1 TTTCGTGTTTGTTTTACGTAATTCGTTTTCCGAAAAATGTTT
*
821587 TTTCGTGTTTGTTTTACGTAATTCGTTTTCCGAATAATGTTT
1 TTTCGTGTTTGTTTTACGTAATTCGTTTTCCGAAAAATGTTT
* *
821629 TCTCGTGTTTGTTTCACGTAATTCGTTTTCCG
1 TTTCGTGTTTGTTTTACGTAATTCGTTTTCCG
821661 GAACGTAATT
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 66 1.00
ACGTcount: A:0.18, C:0.13, G:0.15, T:0.54
Consensus pattern (42 bp):
TTTCGTGTTTGTTTTACGTAATTCGTTTTCCGAAAAATGTTT
Found at i:821918 original size:27 final size:30
Alignment explanation
Indices: 821861--821920 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
821851 TAATCAATTA
821861 TATTATAATAATATAAGATATTATATTTTT
1 TATTATAATAATATAAGATATTATATTTTT
* *
821891 TATTTTAATAATAT-ATA-ATTA-ATTTTT
1 TATTATAATAATATAAGATATTATATTTTT
821918 TAT
1 TAT
821921 ATATTTAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 9 0.32
28 4 0.14
29 2 0.07
30 13 0.46
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (30 bp):
TATTATAATAATATAAGATATTATATTTTT
Found at i:821928 original size:30 final size:29
Alignment explanation
Indices: 821859--821963 Score: 101
Period size: 28 Copynumber: 3.5 Consensus size: 29
821849 TATAATCAAT
*
821859 TATATTATAATAATATAAGATATTATATTTTT-
1 TATATT-TAATAATAT-ATA-ATTAT-TTTTTA
821891 TAT-TTTAATAATATATAATTAATTTTTTA
1 TATATTTAATAATATATAATT-ATTTTTTA
*
821920 TATATTTAATAATGA-ATAA-TATTATTTA
1 TATATTTAATAAT-ATATAATTATTTTTTA
821948 TATATTTAAATAATAT
1 TATATTT-AATAATAT
821964 TTTAGTAAAA
Statistics
Matches: 65, Mismatches: 2, Indels: 15
0.79 0.02 0.18
Matches are distributed among these distances:
28 23 0.35
29 14 0.22
30 22 0.34
31 3 0.05
32 3 0.05
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (29 bp):
TATATTTAATAATATATAATTATTTTTTA
Found at i:827465 original size:2 final size:2
Alignment explanation
Indices: 827458--827482 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
827448 AAACTAAATA
827458 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
827483 ATCATTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:833704 original size:76 final size:76
Alignment explanation
Indices: 833614--833765 Score: 259
Period size: 76 Copynumber: 2.0 Consensus size: 76
833604 GAACAGTTAA
* *
833614 CAACGAGAGTGTTGAATACATTGTCGAATTCCACATTCTCATAATACAAAGGGAGGAGGCTAAGA
1 CAACGAGAGTGTTGAACACATTGTCGAATTCCACATTCTCATAATACAAAGGGAGGAGGATAAGA
833679 AGGAGGGGTGT
66 AGGAGGGGTGT
* **
833690 CAACGAGAGTGTTGAACACATTGTTGAATTCCACATTCTCATAATATGAAGGGAGGAGGATAAGA
1 CAACGAGAGTGTTGAACACATTGTCGAATTCCACATTCTCATAATACAAAGGGAGGAGGATAAGA
833755 AGGAGGGGTGT
66 AGGAGGGGTGT
833766 TTTTAGCCTA
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
76 71 1.00
ACGTcount: A:0.34, C:0.13, G:0.30, T:0.23
Consensus pattern (76 bp):
CAACGAGAGTGTTGAACACATTGTCGAATTCCACATTCTCATAATACAAAGGGAGGAGGATAAGA
AGGAGGGGTGT
Found at i:834143 original size:51 final size:50
Alignment explanation
Indices: 834078--834311 Score: 281
Period size: 51 Copynumber: 4.6 Consensus size: 50
834068 AAAAATATAG
* * *
834078 CACTTAACACATACTTACACCTGTTTAAGTGAATAAAATAAATAAGTGTAA
1 CACTTAACACATACTTACACC-GTGTAAGTAAATAAAATAAAAAAGTGTAA
* * * *
834129 CACTTAACATATACTTACACCGATGTAAGTGAATAAAACAAAAAAGTGTAG
1 CACTTAACACATACTTACACCG-TGTAAGTAAATAAAATAAAAAAGTGTAA
* *
834180 CACTTAGCACATAC-TACACCAATGTAAGTAAATAAAATAAAAAAGTGTAA
1 CACTTAACACATACTTACACC-GTGTAAGTAAATAAAATAAAAAAGTGTAA
* * *
834230 CACTTAACACATATTTACAACGGTGTAAGTAAATAAAATAAAAAAGTGTAG
1 CACTTAACACATACTTAC-ACCGTGTAAGTAAATAAAATAAAAAAGTGTAA
* * *
834281 TACTTAACACATATTTACAACGGTGTAAGTA
1 CACTTAACACATACTTAC-ACCGTGTAAGTA
834312 TATGTTTTTC
Statistics
Matches: 162, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
50 44 0.27
51 116 0.72
52 2 0.01
ACGTcount: A:0.47, C:0.15, G:0.12, T:0.26
Consensus pattern (50 bp):
CACTTAACACATACTTACACCGTGTAAGTAAATAAAATAAAAAAGTGTAA
Found at i:834248 original size:101 final size:102
Alignment explanation
Indices: 834066--834299 Score: 317
Period size: 101 Copynumber: 2.3 Consensus size: 102
834056 ATTTATAGTA
* * ** * * *
834066 AAAAAAATATAGCACTTAACACATACTTACACCTGTTTAAGTGAATAAAATAAATAAGTGTAACA
1 AAAAAAGTGTAGCACTTAACACATACTTACACCAATGTAAGTAAATAAAATAAAAAAGTGTAACA
* * *
834131 CTTAACATATACTTACACCGATGTAAGTGAATAAAAC
66 CTTAACACATACTTACAACGATGTAAGTAAATAAAAC
*
834168 AAAAAAGTGTAGCACTTAGCACATAC-TACACCAATGTAAGTAAATAAAATAAAAAAGTGTAACA
1 AAAAAAGTGTAGCACTTAACACATACTTACACCAATGTAAGTAAATAAAATAAAAAAGTGTAACA
* * *
834232 CTTAACACATATTTACAACGGTGTAAGTAAATAAAAT
66 CTTAACACATACTTACAACGATGTAAGTAAATAAAAC
* *
834269 AAAAAAGTGTAGTACTTAACACATATTTACA
1 AAAAAAGTGTAGCACTTAACACATACTTACA
834300 ACGGTGTAAG
Statistics
Matches: 114, Mismatches: 17, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
101 87 0.76
102 27 0.24
ACGTcount: A:0.49, C:0.15, G:0.11, T:0.26
Consensus pattern (102 bp):
AAAAAAGTGTAGCACTTAACACATACTTACACCAATGTAAGTAAATAAAATAAAAAAGTGTAACA
CTTAACACATACTTACAACGATGTAAGTAAATAAAAC
Found at i:846206 original size:21 final size:21
Alignment explanation
Indices: 846180--846222 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
846170 ATGTCCACGT
846180 ACCGTCTTGTTATCCTTCTCG
1 ACCGTCTTGTTATCCTTCTCG
846201 ACCGTCTTGTTATCCTTCTCG
1 ACCGTCTTGTTATCCTTCTCG
846222 A
1 A
846223 ATTTCTCGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.12, C:0.33, G:0.14, T:0.42
Consensus pattern (21 bp):
ACCGTCTTGTTATCCTTCTCG
Found at i:851383 original size:14 final size:14
Alignment explanation
Indices: 851364--851390 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
851354 GAGGTCATGG
851364 TATCGATACTACTA
1 TATCGATACTACTA
851378 TATCGATACTACT
1 TATCGATACTACT
851391 TTAAGTATTG
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:0.33, C:0.22, G:0.07, T:0.37
Consensus pattern (14 bp):
TATCGATACTACTA
Found at i:852863 original size:19 final size:19
Alignment explanation
Indices: 852828--852875 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
852818 TTAAATTCAA
*
852828 TTTTCAAAATTTCATTTTGT
1 TTTTCAAAATCTCATTTT-T
852848 TTTTCAAAATCT-ATTTTT
1 TTTTCAAAATCTCATTTTT
852866 TCTTTCAAAA
1 T-TTTCAAAA
852876 GAAAATCATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 2 0.08
19 13 0.50
20 11 0.42
ACGTcount: A:0.29, C:0.12, G:0.02, T:0.56
Consensus pattern (19 bp):
TTTTCAAAATCTCATTTTT
Found at i:853370 original size:17 final size:17
Alignment explanation
Indices: 853350--853384 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
853340 CTCACCTACT
* *
853350 TCTTTTTCTTGTTCTTC
1 TCTTCTTCTTCTTCTTC
853367 TCTTCTTCTTCTTCTTC
1 TCTTCTTCTTCTTCTTC
853384 T
1 T
853385 TTTGGAGTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.00, C:0.29, G:0.03, T:0.69
Consensus pattern (17 bp):
TCTTCTTCTTCTTCTTC
Found at i:853373 original size:3 final size:3
Alignment explanation
Indices: 853348--853385 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
853338 TTCTCACCTA
* *
853348 CTT CTT TTT CTT GTT CTT C-T CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
853386 TTGGAGTTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.00, C:0.29, G:0.03, T:0.68
Consensus pattern (3 bp):
CTT
Found at i:853373 original size:20 final size:20
Alignment explanation
Indices: 853348--853385 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
853338 TTCTCACCTA
* *
853348 CTTCTTTTTCTTGTTCTTCT
1 CTTCTTCTTCTTCTTCTTCT
853368 CTTCTTCTTCTTCTTCTT
1 CTTCTTCTTCTTCTTCTT
853386 TTGGAGTTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.00, C:0.29, G:0.03, T:0.68
Consensus pattern (20 bp):
CTTCTTCTTCTTCTTCTTCT
Found at i:864931 original size:12 final size:11
Alignment explanation
Indices: 864916--864953 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
864906 TTACTTATTT
*
864916 TATTAAATACTA
1 TATTATATA-TA
864928 TATTATATATA
1 TATTATATATA
864939 TA-TATATATA
1 TATTATATATA
864949 TATTA
1 TATTA
864954 CCTACTTAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
10 10 0.42
11 6 0.25
12 8 0.33
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (11 bp):
TATTATATATA
Found at i:865133 original size:15 final size:14
Alignment explanation
Indices: 865106--865157 Score: 61
Period size: 14 Copynumber: 3.6 Consensus size: 14
865096 GTTATATATA
*
865106 TTTTTATTTTTATT
1 TTTTTATTATTATT
865120 TTTTTCATTATTATT
1 TTTTT-ATTATTATT
*
865135 TTTTTATT-TTTTT
1 TTTTTATTATTATT
865148 ATTTTTATTA
1 -TTTTTATTA
865158 AACACTATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
13 4 0.12
14 16 0.48
15 13 0.39
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTTATTATTATT
Found at i:865141 original size:8 final size:8
Alignment explanation
Indices: 865112--865153 Score: 52
Period size: 8 Copynumber: 5.4 Consensus size: 8
865102 TATATTTTTA
865112 TTTTTATT
1 TTTTTATT
865120 TTTTTCA--
1 TTTTT-ATT
*
865127 TTATTATT
1 TTTTTATT
865135 TTTTTATT
1 TTTTTATT
865143 TTTTTATT
1 TTTTTATT
865151 TTT
1 TTT
865154 ATTAAACACT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
6 1 0.03
7 4 0.14
8 23 0.79
9 1 0.03
ACGTcount: A:0.14, C:0.02, G:0.00, T:0.83
Consensus pattern (8 bp):
TTTTTATT
Found at i:865144 original size:22 final size:23
Alignment explanation
Indices: 865112--865156 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
865102 TATATTTTTA
865112 TTTTTATTTTTTTCATTATTATT
1 TTTTTATTTTTTTCATTATTATT
*
865135 TTTTTATTTTTTT-ATTTTTATT
1 TTTTTATTTTTTTCATTATTATT
865157 AAACACTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.82
Consensus pattern (23 bp):
TTTTTATTTTTTTCATTATTATT
Found at i:865268 original size:22 final size:22
Alignment explanation
Indices: 865241--865284 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
865231 ATTCCATTAC
* *
865241 TTGTTTTCCTTTGTTTTTATTT
1 TTGTTTTACTTTATTTTTATTT
*
865263 TTGTTTTATTTTATTTTTATTT
1 TTGTTTTACTTTATTTTTATTT
865285 ATTTTATTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.09, C:0.05, G:0.07, T:0.80
Consensus pattern (22 bp):
TTGTTTTACTTTATTTTTATTT
Found at i:865269 original size:5 final size:5
Alignment explanation
Indices: 865255--865396 Score: 66
Period size: 5 Copynumber: 27.6 Consensus size: 5
865245 TTTCCTTTGT
* * *
865255 TTTTA TTTTTG TTTTA TTTTA TTTT- TATTTA TTTTA -TTTA TTTTG TTTTG
1 TTTTA -TTTTA TTTTA TTTTA TTTTA T-TTTA TTTTA TTTTA TTTTA TTTTA
* *
865305 TTTTA TTTT- TATTTA TGTTACCA TGTTA TTTT- TTTTA TCTTTA TTTTA
1 TTTTA TTTTA T-TTTA T-TT--TA TTTTA TTTTA TTTTA T-TTTA TTTTA
*
865353 TTACTT- TTTTACAA TTATA TTTTA TTTTA --TTA TTTTA -TTTA TTT
1 TT--TTA TTTT---A TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTT
865397 AGCCATTTTG
Statistics
Matches: 107, Mismatches: 11, Indels: 37
0.69 0.07 0.24
Matches are distributed among these distances:
3 3 0.03
4 16 0.15
5 65 0.61
6 15 0.14
7 3 0.03
8 5 0.05
ACGTcount: A:0.19, C:0.04, G:0.04, T:0.74
Consensus pattern (5 bp):
TTTTA
Found at i:865285 original size:15 final size:16
Alignment explanation
Indices: 865255--865320 Score: 64
Period size: 16 Copynumber: 4.1 Consensus size: 16
865245 TTTCCTTTGT
*
865255 TTTTATTTTTGTTTTA
1 TTTTATTTTTGATTTA
865271 TTTTATTTTT-ATTTA
1 TTTTATTTTTGATTTA
* *
865286 TTTTATTTATTTTGTTTTG
1 TTTTA--T-TTTTGATTTA
865305 TTTTATTTTT-ATTTA
1 TTTTATTTTTGATTTA
865320 T
1 T
865321 GTTACCATGT
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
15 13 0.32
16 14 0.34
17 2 0.05
18 4 0.10
19 8 0.20
ACGTcount: A:0.15, C:0.00, G:0.05, T:0.80
Consensus pattern (16 bp):
TTTTATTTTTGATTTA
Found at i:865296 original size:19 final size:19
Alignment explanation
Indices: 865261--865312 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
865251 TTGTTTTTAT
*
865261 TTTTGTTTTATTTTATTTT-
1 TTTTATTTTA-TTTATTTTG
865280 TATTTATTTTATTTATTTTG
1 T-TTTATTTTATTTATTTTG
*
865300 TTTTGTTTTATTT
1 TTTTATTTTATTT
865313 TTATTTATGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 20 0.69
20 9 0.31
ACGTcount: A:0.13, C:0.00, G:0.06, T:0.81
Consensus pattern (19 bp):
TTTTATTTTATTTATTTTG
Found at i:865302 original size:34 final size:36
Alignment explanation
Indices: 865256--865351 Score: 117
Period size: 34 Copynumber: 2.6 Consensus size: 36
865246 TTCCTTTGTT
*
865256 TTTATTTTTGTTTTATTTTATTTTTATTTAT-TT-TA
1 TTTA-TTTTGTTTTATTTTATTTTTATTTATGTTACA
*
865291 TTTATTTTGTTTTGTTTTATTTTTATTTATGTTACCA
1 TTTATTTTGTTTTATTTTATTTTTATTTATGTTA-CA
865328 TGTTATTTT-TTTTATCTTTATTTT
1 T-TTATTTTGTTTTAT-TTTATTTT
865352 ATTACTTTTT
Statistics
Matches: 53, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
34 25 0.47
35 6 0.11
37 7 0.13
38 15 0.28
ACGTcount: A:0.16, C:0.03, G:0.05, T:0.76
Consensus pattern (36 bp):
TTTATTTTGTTTTATTTTATTTTTATTTATGTTACA
Found at i:873247 original size:19 final size:20
Alignment explanation
Indices: 873225--873271 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 20
873215 TTTTATATGG
*
873225 TTTATATTTTT-TTTAATAT
1 TTTATATTTTTATTTAAAAT
873244 TTTATTATTTTTAATTTAAAAT
1 TTTA-TATTTTT-ATTTAAAAT
873266 TTTATA
1 TTTATA
873272 AATTCCAGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 4 0.17
20 7 0.29
21 2 0.08
22 11 0.46
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTATATTTTTATTTAAAAT
Found at i:874168 original size:32 final size:32
Alignment explanation
Indices: 874125--874188 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
874115 TATCGCAACG
*
874125 AATTTGGAATAAATCGCAACGCGAACTTGGAC
1 AATTTGAAATAAATCGCAACGCGAACTTGGAC
*
874157 AATTTGAAATAAATCGCAACGCGAATTTGGAC
1 AATTTGAAATAAATCGCAACGCGAACTTGGAC
874189 TATCGCAACG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.23
Consensus pattern (32 bp):
AATTTGAAATAAATCGCAACGCGAACTTGGAC
Found at i:874195 original size:21 final size:21
Alignment explanation
Indices: 874169--874261 Score: 132
Period size: 21 Copynumber: 4.4 Consensus size: 21
874159 TTTGAAATAA
*
874169 ATCGCAACGCGAATTTGGACT
1 ATCGCAACGCGAACTTGGACT
*
874190 ATCGCAACGCGAACTTGGACG
1 ATCGCAACGCGAACTTGGACT
* * *
874211 ACCGCAACGTGAACTTCGACT
1 ATCGCAACGCGAACTTGGACT
874232 ATCGCAACGCGAACTTGGACT
1 ATCGCAACGCGAACTTGGACT
*
874253 ATCACAACG
1 ATCGCAACG
874262 AATTTGGAAA
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 62 1.00
ACGTcount: A:0.30, C:0.29, G:0.23, T:0.18
Consensus pattern (21 bp):
ATCGCAACGCGAACTTGGACT
Found at i:874302 original size:21 final size:21
Alignment explanation
Indices: 874273--874325 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
874263 ATTTGGAAAA
*
874273 TCGCATTGCGATAGTCGAAGT
1 TCGCGTTGCGATAGTCGAAGT
* *
874294 TCGCGTTGCAATAGTCGATGT
1 TCGCGTTGCGATAGTCGAAGT
874315 TCGCGTTGCGA
1 TCGCGTTGCGA
874326 ATCTGGAAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.19, C:0.21, G:0.30, T:0.30
Consensus pattern (21 bp):
TCGCGTTGCGATAGTCGAAGT
Found at i:879145 original size:29 final size:28
Alignment explanation
Indices: 879105--879177 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 28
879095 AAAATCAAAT
*
879105 TAAACGGGGACGGGAAAACCCGTTTATGC
1 TAAAC-GGGACGGGAAAAACCGTTTATGC
* *
879134 TAAACGGAGACGGAAAAAACCGTTTATGT
1 TAAACGG-GACGGGAAAAACCGTTTATGC
879163 TAAACGGGAACGGGA
1 TAAACGGG-ACGGGA
879178 CGGGTTTAGT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
28 3 0.08
29 35 0.92
ACGTcount: A:0.37, C:0.16, G:0.30, T:0.16
Consensus pattern (28 bp):
TAAACGGGACGGGAAAAACCGTTTATGC
Found at i:884212 original size:21 final size:22
Alignment explanation
Indices: 884186--884228 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
884176 TTATCTCGTC
* *
884186 TATTT-CTTATCTGTAAAAAAA
1 TATTTCCTCATCTATAAAAAAA
884207 TATTTCCTCATCTATAAAAAAA
1 TATTTCCTCATCTATAAAAAAA
884229 ACAAATAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.44, C:0.14, G:0.02, T:0.40
Consensus pattern (22 bp):
TATTTCCTCATCTATAAAAAAA
Found at i:886305 original size:3 final size:3
Alignment explanation
Indices: 886297--886345 Score: 64
Period size: 3 Copynumber: 16.7 Consensus size: 3
886287 ATTTGTAAAT
* **
886297 TAA TAA TAA TAA TAG TAA TAA TAA TAA T-A TAA CGA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
886344 TA
1 TA
886346 TAAAAAAAAG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:886748 original size:130 final size:129
Alignment explanation
Indices: 886544--886882 Score: 520
Period size: 130 Copynumber: 2.6 Consensus size: 129
886534 CGTCTAAGGG
* * * * * *
886544 TGACATGGTTCCTACGTGATGAGGAAATCTGGTC-GAGGGTTGACACTGCTCATATGTGATGAAG
1 TGACACGGCTCCTACGTGATGAGGAGATCTGGTCTG-GGGATGACACGGCTCATACGTGATGAAG
886608 AGTTCTTGGCCATCTTAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTACGG
65 AGTTC-TGGCCATCTTAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTACGG
886673 T
129 T
886674 TGACACGGCTCCTACGTGATGAGGAGATCTGGTCTGGGGAATGACACGGCTCATACGTGATGAAG
1 TGACACGGCTCCTACGTGATGAGGAGATCTGGTCTGGGG-ATGACACGGCTCATACGTGATGAAG
* *
886739 AGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGT
65 AGTTCTGGCCATCTTAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTACGGT
* * *
886804 TGACACGGCTCCTACGTGATGAGGAGATCTGGTCTGGGGATGACACGGTTCCTACATGATGAAGA
1 TGACACGGCTCCTACGTGATGAGGAGATCTGGTCTGGGGATGACACGGCTCATACGTGATGAAGA
*
886869 CG-GCTGGCCATCTT
66 -GTTCTGGCCATCTT
886883 TAGGAGTTAT
Statistics
Matches: 193, Mismatches: 13, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
129 33 0.17
130 132 0.68
131 28 0.15
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (129 bp):
TGACACGGCTCCTACGTGATGAGGAGATCTGGTCTGGGGATGACACGGCTCATACGTGATGAAGA
GTTCTGGCCATCTTAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTACGGT
Found at i:886799 original size:46 final size:45
Alignment explanation
Indices: 886623--886836 Score: 180
Period size: 43 Copynumber: 4.9 Consensus size: 45
886613 TTGGCCATCT
* *
886623 TAAGGTGATAACACGGTTCCTACGTGATGAGGACG-GCTGGTTATC
1 TAAGGTGATGACACGGCTCCTACGTGATGAGGA-GAGCTGGTTATC
* *
886668 TACGGT--TGACACGGCTCCTACGTGATGAGGAGATCTGG---TC
1 TAAGGTGATGACACGGCTCCTACGTGATGAGGAGAGCTGGTTATC
* * * ** **
886708 T--GGGGAATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATC
1 TAAGGTG-ATGACACGGCTCCTACGTGATGAGGAGAGCTGGTTATC
* *
886752 TAAAGGTGATAACACGGTTCCTACGTGATGAGGACG-GCTGGTTATC
1 T-AAGGTGATGACACGGCTCCTACGTGATGAGGA-GAGCTGGTTATC
* *
886798 TATGGT--TGACACGGCTCCTACGTGATGAGGAGATCTGGT
1 TAAGGTGATGACACGGCTCCTACGTGATGAGGAGAGCTGGT
886837 CTGGGGATGA
Statistics
Matches: 137, Mismatches: 20, Indels: 26
0.75 0.11 0.14
Matches are distributed among these distances:
38 2 0.01
40 3 0.02
41 29 0.21
42 2 0.01
43 55 0.40
44 3 0.02
45 9 0.07
46 30 0.22
47 4 0.03
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.26
Consensus pattern (45 bp):
TAAGGTGATGACACGGCTCCTACGTGATGAGGAGAGCTGGTTATC
Found at i:886934 original size:28 final size:28
Alignment explanation
Indices: 886894--886956 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
886884 AGGAGTTATG
* *
886894 GTTTCAAGAGAAACCA-AATTAAAGATTT
1 GTTTCAAAAGAAA-CAGAATCAAAGATTT
*
886922 GTTTCAAAAGAAACAGACTCAAAGATTT
1 GTTTCAAAAGAAACAGAATCAAAGATTT
886950 GTTTCAA
1 GTTTCAA
886957 GAAAACAAGC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
27 2 0.06
28 29 0.94
ACGTcount: A:0.44, C:0.13, G:0.14, T:0.29
Consensus pattern (28 bp):
GTTTCAAAAGAAACAGAATCAAAGATTT
Found at i:886985 original size:30 final size:28
Alignment explanation
Indices: 886914--886989 Score: 93
Period size: 28 Copynumber: 2.6 Consensus size: 28
886904 AAACCAAATT
886914 AAAGATTTGTTTCAAAAGAAACAGACTC
1 AAAGATTTGTTTCAAAAGAAACAGACTC
*
886942 AAAGATTTGTTTCAAGA-AAACA-AGCTC
1 AAAGATTTGTTTCAAAAGAAACAGA-CTC
886969 AAAGATAATGTGTTTCAAAAG
1 AAAGAT--T-TGTTTCAAAAG
886990 CAACTGTCTC
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
26 1 0.02
27 14 0.34
28 16 0.39
29 1 0.02
30 9 0.22
ACGTcount: A:0.46, C:0.12, G:0.16, T:0.26
Consensus pattern (28 bp):
AAAGATTTGTTTCAAAAGAAACAGACTC
Found at i:887180 original size:66 final size:65
Alignment explanation
Indices: 886991--887180 Score: 170
Period size: 66 Copynumber: 2.9 Consensus size: 65
886981 TTTCAAAAGC
** * *
886991 AACTGTCTCGAAA-GAGACAAAATTCATTTCAAATGAAAC-AACTCAAAAGATG-ACGTTTAAAG
1 AACTGTCTC-AAATGAGACAAAATTCATTTCAAGGGAAACGATCTC-AAAGATGTATGTTTAAAG
887053 GG
64 GG
* * ** * * * * * * * *
887055 AATTGTCTCAAGTGAGACAAAATTTGTTTTTAAGGGAAATGTTCTCAAATATCTGTGTTTCATGG
1 AACTGTCTCAAATGAGACAAAA-TTCATTTCAAGGGAAACGATCTCAAAGATGTATGTTTAAAGG
887120 G
65 G
*
887121 AAACTGTCTCAAATGAGACAAAATTCATTTCAAGGGAAACGATCTCAAAGATGTTTGTTT
1 -AACTGTCTCAAATGAGACAAAATTCATTTCAAGGGAAACGATCTCAAAGATGTATGTTT
887181 TGTTTCAAGG
Statistics
Matches: 95, Mismatches: 26, Indels: 8
0.74 0.20 0.06
Matches are distributed among these distances:
63 2 0.02
64 17 0.18
65 16 0.17
66 40 0.42
67 20 0.21
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (65 bp):
AACTGTCTCAAATGAGACAAAATTCATTTCAAGGGAAACGATCTCAAAGATGTATGTTTAAAGGG
Found at i:892714 original size:21 final size:22
Alignment explanation
Indices: 892688--892730 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
892678 TTATCTCGTC
* *
892688 TATTT-CTTATCTGTAAAAAAA
1 TATTTCCTCATCTATAAAAAAA
892709 TATTTCCTCATCTATAAAAAAA
1 TATTTCCTCATCTATAAAAAAA
892731 ACAAATAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.44, C:0.14, G:0.02, T:0.40
Consensus pattern (22 bp):
TATTTCCTCATCTATAAAAAAA
Found at i:894821 original size:3 final size:3
Alignment explanation
Indices: 894813--894861 Score: 64
Period size: 3 Copynumber: 16.7 Consensus size: 3
894803 ATTTGTAAAT
* **
894813 TAA TAA TAA TAA TAG TAA TAA TAA TAA T-A TAA CGA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
894860 TA
1 TA
894862 TAAAAAAAAG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:897923 original size:21 final size:21
Alignment explanation
Indices: 897897--897938 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
897887 CCATAATGGG
*
897897 GGGAATCAGTACCCCTTCATA
1 GGGAATCAATACCCCTTCATA
897918 GGGAATCAATACCCCTTCATA
1 GGGAATCAATACCCCTTCATA
897939 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.24
Consensus pattern (21 bp):
GGGAATCAATACCCCTTCATA
Found at i:898071 original size:15 final size:15
Alignment explanation
Indices: 898051--898107 Score: 53
Period size: 15 Copynumber: 3.5 Consensus size: 15
898041 AACCATACAG
898051 GGGGAATCTGTACCC
1 GGGGAATCTGTACCC
898066 GGGGAATC-GATACCCC
1 GGGGAATCTG-TA-CCC
*
898082 TGGGGGGAATCTGTTCCC
1 ---GGGGAATCTGTACCC
898100 GGGGAATC
1 GGGGAATC
898108 GATACCCCCT
Statistics
Matches: 35, Mismatches: 1, Indels: 12
0.73 0.02 0.25
Matches are distributed among these distances:
14 1 0.03
15 18 0.51
16 3 0.09
18 3 0.09
19 9 0.26
20 1 0.03
ACGTcount: A:0.19, C:0.25, G:0.37, T:0.19
Consensus pattern (15 bp):
GGGGAATCTGTACCC
Found at i:898124 original size:35 final size:34
Alignment explanation
Indices: 898050--898134 Score: 152
Period size: 34 Copynumber: 2.5 Consensus size: 34
898040 AAACCATACA
*
898050 GGGGGAATCTGTACCCGGGGAATCGATACCCCTG
1 GGGGGAATCTGTTCCCGGGGAATCGATACCCCTG
898084 GGGGGAATCTGTTCCCGGGGAATCGATACCCCCTG
1 GGGGGAATCTGTTCCCGGGGAATCGATA-CCCCTG
898119 GGGGGAATCTGTTCCC
1 GGGGGAATCTGTTCCC
898135 TCTGGGCAAT
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
34 27 0.55
35 22 0.45
ACGTcount: A:0.18, C:0.27, G:0.35, T:0.20
Consensus pattern (34 bp):
GGGGGAATCTGTTCCCGGGGAATCGATACCCCTG
Found at i:898135 original size:18 final size:18
Alignment explanation
Indices: 898079--898135 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 18
898069 GAATCGATAC
898079 CCCTGGGGGGAATCTGTT
1 CCCTGGGGGGAATCTGTT
*
898097 CCC---GGGGAATC-GATACC
1 CCCTGGGGGGAATCTG-T--T
898114 CCCTGGGGGGAATCTGTT
1 CCCTGGGGGGAATCTGTT
898132 CCCT
1 CCCT
898136 CTGGGCAATC
Statistics
Matches: 30, Mismatches: 2, Indels: 14
0.65 0.04 0.30
Matches are distributed among these distances:
14 1 0.03
15 9 0.30
17 3 0.10
18 7 0.23
20 9 0.30
21 1 0.03
ACGTcount: A:0.14, C:0.30, G:0.33, T:0.23
Consensus pattern (18 bp):
CCCTGGGGGGAATCTGTT
Found at i:898139 original size:20 final size:19
Alignment explanation
Indices: 898078--898140 Score: 55
Period size: 20 Copynumber: 3.4 Consensus size: 19
898068 GGAATCGATA
898078 CCCCTGGGGGGAATCTGTT
1 CCCCTGGGGGGAATCTGTT
*
898097 -CCC---GGGGAATC-GATAC
1 CCCCTGGGGGGAATCTG-T-T
898113 CCCCTGGGGGGAATCTGTT
1 CCCCTGGGGGGAATCTGTT
898132 CCCTCTGGG
1 CCC-CTGGG
898141 CAATCTGGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 15
0.67 0.04 0.29
Matches are distributed among these distances:
14 1 0.03
15 9 0.26
17 3 0.09
18 3 0.09
19 3 0.09
20 14 0.41
21 1 0.03
ACGTcount: A:0.13, C:0.30, G:0.35, T:0.22
Consensus pattern (19 bp):
CCCCTGGGGGGAATCTGTT
Found at i:899568 original size:19 final size:20
Alignment explanation
Indices: 899525--899572 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
899515 TCTAAATCCT
*
899525 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
899545 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
899564 TTTTCAAAA
1 TTTTCAAAA
899573 GAAAATCGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:900809 original size:21 final size:21
Alignment explanation
Indices: 900783--900824 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
900773 CTGGAATGGG
*
900783 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
900804 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
900825 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:900957 original size:15 final size:15
Alignment explanation
Indices: 900937--900993 Score: 53
Period size: 15 Copynumber: 3.5 Consensus size: 15
900927 AACCATGCAG
900937 GGGGAATCTGTACCC
1 GGGGAATCTGTACCC
900952 GGGGAAT-TGATACCCC
1 GGGGAATCTG-TA-CCC
*
900968 TGGGGGGAATCTGTTCCC
1 ---GGGGAATCTGTACCC
900986 GGGGAATC
1 GGGGAATC
900994 GATACCCCCC
Statistics
Matches: 35, Mismatches: 1, Indels: 12
0.73 0.02 0.25
Matches are distributed among these distances:
14 2 0.06
15 17 0.49
16 3 0.09
18 3 0.09
19 8 0.23
20 2 0.06
ACGTcount: A:0.19, C:0.23, G:0.37, T:0.21
Consensus pattern (15 bp):
GGGGAATCTGTACCC
Found at i:901015 original size:35 final size:34
Alignment explanation
Indices: 900936--901020 Score: 134
Period size: 34 Copynumber: 2.5 Consensus size: 34
900926 AAACCATGCA
* * *
900936 GGGGGAATCTGTACCCGGGGAATTGATACCCCTG
1 GGGGGAATCTGTTCCCGGGGAATCGATACCCCCG
900970 GGGGGAATCTGTTCCCGGGGAATCGATACCCCCCG
1 GGGGGAATCTGTTCCCGGGGAATCGATA-CCCCCG
901005 GGGGGAATCTGTTCCC
1 GGGGGAATCTGTTCCC
901021 TCTGGGCAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
34 26 0.55
35 21 0.45
ACGTcount: A:0.18, C:0.27, G:0.35, T:0.20
Consensus pattern (34 bp):
GGGGGAATCTGTTCCCGGGGAATCGATACCCCCG
Found at i:902218 original size:26 final size:27
Alignment explanation
Indices: 902166--902223 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
902156 TAATTCTTTC
*
902166 TTTTCAAAATTTTTATATATACTTATTA
1 TTTTCAAAATATTTATATATAC-TATTA
* *
902194 TTTTCATAATATTTATATGTA-TATTA
1 TTTTCAAAATATTTATATATACTATTA
902220 TTTT
1 TTTT
902224 ATTAATGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 9 0.33
28 18 0.67
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (27 bp):
TTTTCAAAATATTTATATATACTATTA
Found at i:903821 original size:12 final size:13
Alignment explanation
Indices: 903804--903832 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
903794 ACATTCACAT
903804 ATTTACA-TTTGC
1 ATTTACATTTTGC
903816 ATTTACATTTTGC
1 ATTTACATTTTGC
903829 ATTT
1 ATTT
903833 TTTTTCATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.24, C:0.14, G:0.07, T:0.55
Consensus pattern (13 bp):
ATTTACATTTTGC
Found at i:906498 original size:26 final size:25
Alignment explanation
Indices: 906459--906509 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 25
906449 TATTATACTT
*
906459 GAAAAAAAAGAAAAAAAGGAAAAAA
1 GAAAAAAAAAAAAAAAAGGAAAAAA
906484 GAAAAAAAGAAAAAAAAAGGAAAAAA
1 GAAAAAAA-AAAAAAAAAGGAAAAAA
906510 ATTGAACCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (25 bp):
GAAAAAAAAAAAAAAAAGGAAAAAA
Found at i:906507 original size:9 final size:9
Alignment explanation
Indices: 906459--906510 Score: 63
Period size: 9 Copynumber: 5.9 Consensus size: 9
906449 TATTATACTT
*
906459 GAAAAAAAA
1 GAAAAAAAG
906468 GAAAAAAAG
1 GAAAAAAAG
906477 G-AAAAAA-
1 GAAAAAAAG
906484 GAAAAAAAG
1 GAAAAAAAG
*
906493 AAAAAAAAAG
1 -GAAAAAAAG
906503 GAAAAAAA
1 GAAAAAAA
906511 TTGAACCAAG
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
7 1 0.03
8 12 0.32
9 16 0.43
10 8 0.22
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (9 bp):
GAAAAAAAG
Found at i:906509 original size:8 final size:8
Alignment explanation
Indices: 906461--906499 Score: 69
Period size: 8 Copynumber: 4.9 Consensus size: 8
906451 TTATACTTGA
906461 AAAAAAAG
1 AAAAAAAG
906469 AAAAAAAG
1 AAAAAAAG
*
906477 GAAAAAAG
1 AAAAAAAG
906485 AAAAAAAG
1 AAAAAAAG
906493 AAAAAAA
1 AAAAAAA
906500 AAGGAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:907043 original size:32 final size:32
Alignment explanation
Indices: 907007--907068 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
906997 GTTAGACACA
*
907007 AGAAGTATCTCTACGAGATGAGCATAACAACG
1 AGAAGTATCTCTACAAGATGAGCATAACAACG
907039 AGAAGTATCTCTACAAGATGAGCATAACAA
1 AGAAGTATCTCTACAAGATGAGCATAACAA
907069 TCATTTCTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.44, C:0.18, G:0.19, T:0.19
Consensus pattern (32 bp):
AGAAGTATCTCTACAAGATGAGCATAACAACG
Found at i:909458 original size:75 final size:75
Alignment explanation
Indices: 909365--909608 Score: 416
Period size: 75 Copynumber: 3.3 Consensus size: 75
909355 ACAAGAAGCA
* * * * *
909365 AATGCTGGGGTATGCTGAAAGCCCCTTTTAAACAGAATGAATAATGTTGACGCATTTTGAACGCT
1 AATGTTGGGGCATGCTGAAAGCCCCTTTCAATCAGAATGAAGAATGTTGACGCATTTTGAACGCT
909430 TGTATTAGCC
66 TGTATTAGCC
* * *
909440 AATATTGGGGCATGCTGAAAGCCCCTTTCAATCAGAATGGAGAATGTTCACGCATTTTGAACGCT
1 AATGTTGGGGCATGCTGAAAGCCCCTTTCAATCAGAATGAAGAATGTTGACGCATTTTGAACGCT
909505 TGTATTAGCC
66 TGTATTAGCC
909515 AATGTTGGGGCATGCTGAAAGCCCCTTTCAATCAGAATGAAGAATGTTGACGCATTTTGAACGCT
1 AATGTTGGGGCATGCTGAAAGCCCCTTTCAATCAGAATGAAGAATGTTGACGCATTTTGAACGCT
909580 TGTATTAGCC
66 TGTATTAGCC
909590 AATGTTGGGGCATGCTGAA
1 AATGTTGGGGCATGCTGAA
909609 GGTCTGTATC
Statistics
Matches: 158, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
75 158 1.00
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (75 bp):
AATGTTGGGGCATGCTGAAAGCCCCTTTCAATCAGAATGAAGAATGTTGACGCATTTTGAACGCT
TGTATTAGCC
Found at i:911006 original size:22 final size:21
Alignment explanation
Indices: 910956--911010 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 21
910946 ATCTACACTC
*
910956 TTCAAAGATGATATATTCTCT
1 TTCAAAGATGATAGATTCTCT
*
910977 CTCTAAAGATGATAGATTCTCTT
1 TTC-AAAGATGATAGATTCTC-T
911000 TTCAAAGATGA
1 TTCAAAGATGA
911011 AAGCTTTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 2 0.07
22 24 0.83
23 3 0.10
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.38
Consensus pattern (21 bp):
TTCAAAGATGATAGATTCTCT
Found at i:911703 original size:113 final size:113
Alignment explanation
Indices: 911370--911754 Score: 550
Period size: 113 Copynumber: 3.5 Consensus size: 113
911360 GATTCAAATC
*
911370 CATCACTTGATGGATCAGCATTTCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCACTTGATGGATCAACATTTCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* *
911435 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTTAATT
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACATTTTGCTTGAATT
** * * * * * *
911483 CATCACCCGATGGATTAACATTGCCAGAG-AAAGTTCAAAATGAGAAGAACTTATATGAA-AA--
1 CATCACTTGATGGATCAACATTTCCAG-GTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
*
911544 AA-AA-AAGTTCATAATGAGAAGAACTTGTTCAACATTTTGTTTGAATT
65 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACATTTTGCTTGAATT
*
911591 CATCATTTGATGGATCAACATTTCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCACTTGATGGATCAACATTTCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* *
911656 AGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACATTTTGCTCGAATT
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACATTTTGCTTGAATT
* *
911704 CATCACTTGATAGATCAGCA-TTCCTAGGTAGAGTTCATAATGAGAAGAACT
1 CATCACTTGATGGATCAACATTTCC-AGGTAGAGTTCATAATGAGAAGAACT
911755 TTTTCAACCT
Statistics
Matches: 237, Mismatches: 27, Indels: 16
0.85 0.10 0.06
Matches are distributed among these distances:
107 1 0.00
108 88 0.37
109 4 0.02
110 2 0.01
111 2 0.01
112 8 0.03
113 131 0.55
114 1 0.00
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (113 bp):
CATCACTTGATGGATCAACATTTCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACATTTTGCTTGAATT
Found at i:911781 original size:73 final size:73
Alignment explanation
Indices: 911662--911825 Score: 233
Period size: 73 Copynumber: 2.2 Consensus size: 73
911652 AGGAAGAAGA
* * * *
911662 AGTTCATAATGAGAAGAGCTTGTTCAACATTTTGCTCGAATTCATCACTTGATAGATCAGCATT-
1 AGTTCATAATGAGAAGAACTTGTTCAACATTTTGCTCGAAATCATCACTTGACAGATCAACATTG
911726 CCTAGGTAG
66 CC-AGGTAG
* * *
911735 AGTTCATAATGAGAAGAACTTTTTCAACCTTTTGCTC-AACATCATCACTTGACGGATCAACATT
1 AGTTCATAATGAGAAGAACTTGTTCAACATTTTGCTCGAA-ATCATCACTTGACAGATCAACATT
911799 GCCAGGTAG
65 GCCAGGTAG
911808 AGTTCATAATGAGAAGAA
1 AGTTCATAATGAGAAGAA
911826 TTCGTCTGAA
Statistics
Matches: 82, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
72 2 0.02
73 78 0.95
74 2 0.02
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.30
Consensus pattern (73 bp):
AGTTCATAATGAGAAGAACTTGTTCAACATTTTGCTCGAAATCATCACTTGACAGATCAACATTG
CCAGGTAG
Found at i:911798 original size:186 final size:186
Alignment explanation
Indices: 911549--911938 Score: 604
Period size: 186 Copynumber: 2.1 Consensus size: 186
911539 GAAAAAAAAA
* * * * * *
911549 AGTTCATAATGAGAAGAACTTGTTCAACATTTTGTTTGAATTCATCATTTGATGGATCAACATTT
1 AGTTCATAATGAGAAGAACTTGTTCAACATTTTGTCTCAAATCATCACTTGACGGATCAACATTG
911614 CCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
66 CCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
* * *
911679 GCTTGTTCAACATTTTGCTCGAATTCATCACTTGATAGATCAGCATT-CCTAGGTAG
131 ACTTGTTCAACATTTTACTCGAATTCATCACTTGATAGATCAACATTGCC-AGGTAG
* *
911735 AGTTCATAATGAGAAGAACTTTTTCAACCTTTTG-CTCAACATCATCACTTGACGGATCAACATT
1 AGTTCATAATGAGAAGAACTTGTTCAACATTTTGTCTCAA-ATCATCACTTGACGGATCAACATT
* * *
911799 GCCAGGTAGAGTTCATAATGAGAAGAATTCGTCTGAAGAAGGAAGATGAAGTTCATAATGAGAAG
65 GCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAG
* *
911864 AACTTGTTCAACCTTTTACTCGAATTCATCACTTGATGGATCAACATTGCCAGGTAG
130 AACTTGTTCAACATTTTACTCGAATTCATCACTTGATAGATCAACATTGCCAGGTAG
911921 AGTTCATAATGAGAAGAA
1 AGTTCATAATGAGAAGAA
911939 TTCATCTGAA
Statistics
Matches: 186, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
185 3 0.02
186 181 0.97
187 2 0.01
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.30
Consensus pattern (186 bp):
AGTTCATAATGAGAAGAACTTGTTCAACATTTTGTCTCAAATCATCACTTGACGGATCAACATTG
CCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
ACTTGTTCAACATTTTACTCGAATTCATCACTTGATAGATCAACATTGCCAGGTAG
Found at i:911853 original size:113 final size:113
Alignment explanation
Indices: 911735--912415 Score: 729
Period size: 113 Copynumber: 6.0 Consensus size: 113
911725 TCCTAGGTAG
* * *
911735 AGTTCATAATGAGAAGAACTTTTTCAACCTTTTGCTC-AACATCATCACTTGACGGATCAACATT
1 AGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAA-TTCATCACTTGATGGATCAACATT
* * *
911799 GCCAGGTAGAGTTCATAATGAGAAGAATTCGTCTGAAGAAGGAAGATGA
65 GCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
*
911848 AGTTCATAATGAGAAGAACTTGTTCAACCTTTTACTCGAATTCATCACTTGATGGATCAACATTG
1 AGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATTCATCACTTGATGGATCAACATTG
*
911913 CCAGGTAGAGTTCATAATGAGAAGAATTCATCTGAAGAAGGAAGAAGA
66 CCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
* *
911961 AGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCGAATTCATCACTTGATGGATCATCATTG
1 AGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATTCATCACTTGATGGATCAACATTG
* * * *
912026 CCAGGTAGAGTTCAAAATAAGAAGAACTCATCTGAAGAAGGAATAATA
66 CCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
* * * * * * * *
912074 AATTCATAATGAGAAGAATTTGTCCCAACCTTTTGTTTGAATTCGTCACTCGATGGATCAACTTT
1 AGTTCATAATGAGAAGAACTTGT-TCAACCTTTTGCTCGAATTCATCACTTGATGGATCAACATT
* * *
912139 TCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGA
65 GCCAG-GTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
* *
912188 AGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCGT-G-ACTCTATCACAGAAGGAGATAGATC
1 AGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC-TCGAATTC-ATCAC---------TTGAT-
* * * * * *
912251 AGCATCAACTTTTCCAGAG-AAAATTCATAATGAGAAGAACTCATCTGAAAAAGGAAGAAGA
54 -GGATCAACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
* * ** * *
912312 AGTTCATAATGAGAAGAACTTGTTTAACCTTTT--T----TTCATTACTCAATGGATCAACTTTT
1 AGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATTCATCACTTGATGGATCAACATTG
** * * *
912371 CCAGAAAAAGTTCGTAATGAGAAGAACTTATCTGAAG-AGGAAGAA
66 CCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
912416 TTCGTTCAAC
Statistics
Matches: 498, Mismatches: 53, Indels: 41
0.84 0.09 0.07
Matches are distributed among these distances:
106 8 0.02
107 42 0.08
109 3 0.01
112 3 0.01
113 244 0.49
114 98 0.20
115 1 0.00
118 4 0.01
119 2 0.00
121 1 0.00
122 4 0.01
124 88 0.18
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.28
Consensus pattern (113 bp):
AGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATTCATCACTTGATGGATCAACATTG
CCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
Found at i:911974 original size:299 final size:294
Alignment explanation
Indices: 911441--912053 Score: 901
Period size: 299 Copynumber: 2.1 Consensus size: 294
911431 AGGAAGAAGA
* * * *
911441 AGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTTAATTCATCACCCGATGGATTAACATTG
1 AGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTCAAATCATCACCCGACGGATCAACATTG
911506 CCAGAGAAAGTTCAAAATGAGAAGAACTTATATGAAAAAAAAAAGTTCATAATGAGAAGAACTTG
66 CCAGAGAAAGTTCAAAATGAGAAGAACTTATATGAAAAAAAAAAGTTCATAATGAGAAGAACTTG
** * * *
911571 TTCAACATTTTGTTTGAATTCATCATTTGATGGATCAACATTTCCAGGTAGAGTTCATAATGAGA
131 TTCAACATTTTACTCGAATTCATCACTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGA
911636 AGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACATTTTGCTCGA
196 AGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACATTTTGCTCGA
911701 ATTCATCACTTGATAGATCAGCATT-CCTAGGTAG
261 ATTCATCACTTGATAGATCAGCATTGCC-AGGTAG
* **
911735 AGTTCATAATGAGAAGAACTTTTTCAACCTTTTGC-TCAACATCATCACTTGACGGATCAACATT
1 AGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTCAA-ATCATCACCCGACGGATCAACATT
* * * * *
911799 GCCAG-GTAGAGTTCATAATGAGAAGAA-TTCGTCTGAAGAAGGAAGATGAAGTTCATAATGAGA
65 GCCAGAG-AAAGTTCAAAATGAGAAGAACTT-ATATGAA-AA--AA-A-AAAGTTCATAATGAGA
*
911862 AGAACTTGTTCAACCTTTTACTCGAATTCATCACTTGATGGATCAACATTGCCAGGTAGAGTTCA
123 AGAACTTGTTCAACATTTTACTCGAATTCATCACTTGATGGATCAACATTGCCAGGTAGAGTTCA
* *
911927 TAATGAGAAGAATTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTT
188 TAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACATT
* *
911992 TTGCTCGAATTCATCACTTGATGGATCATCATTGCCAGGTAG
253 TTGCTCGAATTCATCACTTGATAGATCAGCATTGCCAGGTAG
* *
912034 AGTTCAAAATAAGAAGAACT
1 AGTTCATAATGAGAAGAACT
912054 CATCTGAAGA
Statistics
Matches: 286, Mismatches: 24, Indels: 13
0.89 0.07 0.04
Matches are distributed among these distances:
293 6 0.02
294 81 0.28
295 2 0.01
297 2 0.01
298 1 0.00
299 192 0.67
300 2 0.01
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.29
Consensus pattern (294 bp):
AGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTCAAATCATCACCCGACGGATCAACATTG
CCAGAGAAAGTTCAAAATGAGAAGAACTTATATGAAAAAAAAAAGTTCATAATGAGAAGAACTTG
TTCAACATTTTACTCGAATTCATCACTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGA
AGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACATTTTGCTCGA
ATTCATCACTTGATAGATCAGCATTGCCAGGTAG
Found at i:911975 original size:24 final size:23
Alignment explanation
Indices: 911932--911976 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
911922 GTTCATAATG
*
911932 AGAAGAATTCATCTGAAGAAGGA
1 AGAAGAATTCATATGAAGAAGGA
911955 AGAAGAAGTTCATAATG-AGAAG
1 AGAAGAA-TTCAT-ATGAAGAAG
911977 AGCTTGTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 7 0.37
24 10 0.53
25 2 0.11
ACGTcount: A:0.49, C:0.07, G:0.27, T:0.18
Consensus pattern (23 bp):
AGAAGAATTCATATGAAGAAGGA
Found at i:914417 original size:2 final size:2
Alignment explanation
Indices: 914410--914439 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
914400 CATATTAGTC
914410 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
914440 TTGTTTAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:917612 original size:20 final size:21
Alignment explanation
Indices: 917587--917637 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 21
917577 AGAAAATAAT
917587 TAATCAAATC-AATTA-ATTAA
1 TAATCAAATCAAATTATATT-A
917607 TAATCAAATCAAAATTATATTA
1 TAATCAAATC-AAATTATATTA
917629 TAATCAAAT
1 TAATCAAAT
917638 ATTCATTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 10 0.36
22 15 0.54
23 3 0.11
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (21 bp):
TAATCAAATCAAATTATATTA
Found at i:917831 original size:31 final size:31
Alignment explanation
Indices: 917786--917864 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
917776 TGTTGAGCAT
917786 GACTCGACTCGAAAACTTTGAAATAAAGTTC
1 GACTCGACTCGAAAACTTTGAAATAAAGTTC
* * * *
917817 GACTCGATTTGAAAACTTTGAAATGAGGTTC
1 GACTCGACTCGAAAACTTTGAAATAAAGTTC
* * *
917848 GATTTGACTCTAAAACT
1 GACTCGACTCGAAAACT
917865 CACAAGCTTA
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.30
Consensus pattern (31 bp):
GACTCGACTCGAAAACTTTGAAATAAAGTTC
Found at i:918761 original size:3 final size:3
Alignment explanation
Indices: 918753--918777 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
918743 TTGAAGTTGA
918753 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
918778 ATTTTCAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:923994 original size:37 final size:38
Alignment explanation
Indices: 923953--924048 Score: 108
Period size: 37 Copynumber: 2.5 Consensus size: 38
923943 ATAAACGTTA
* *
923953 AATAAATCAAAGAAGGTAAAAATA-AAAAT-AAT-AAAAT
1 AATAAATCAAAG--GGAAAAAAGAGAAAATAAATAAAAAT
*
923990 AATAAATTAAAGGGAAAAAAGAGAAAATAAATAAAAAT
1 AATAAATCAAAGGGAAAAAAGAGAAAATAAATAAAAAT
*
924028 AAAAAAGTCAAAGGGAAAAAA
1 AATAAA-TCAAAGGGAAAAAA
924049 TTAAATAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
35 8 0.16
36 5 0.10
37 14 0.28
38 10 0.20
39 13 0.26
ACGTcount: A:0.71, C:0.02, G:0.12, T:0.15
Consensus pattern (38 bp):
AATAAATCAAAGGGAAAAAAGAGAAAATAAATAAAAAT
Found at i:924044 original size:39 final size:36
Alignment explanation
Indices: 923951--924048 Score: 99
Period size: 38 Copynumber: 2.6 Consensus size: 36
923941 AAATAAACGT
* *
923951 TAAATAAATCAAAGAAGGTAAAAATA-AAAATAATAAAA
1 TAAA-AAATCAAAG--GGAAAAAAGAGAAAATAATAAAA
* *
923989 TAATAAATTAAAGGGAAAAAAGAGAAAATAAATAAAAA
1 TAAAAAATCAAAGGGAAAAAAGAGAAAAT-AAT-AAAA
924027 TAAAAAAGTCAAAGGGAAAAAA
1 TAAAAAA-TCAAAGGGAAAAAA
924049 TTAAATAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
35 8 0.16
36 5 0.10
37 11 0.22
38 13 0.26
39 13 0.26
ACGTcount: A:0.70, C:0.02, G:0.12, T:0.15
Consensus pattern (36 bp):
TAAAAAATCAAAGGGAAAAAAGAGAAAATAATAAAA
Found at i:924117 original size:49 final size:48
Alignment explanation
Indices: 924003--924134 Score: 126
Period size: 52 Copynumber: 2.6 Consensus size: 48
923993 AAATTAAAGG
* *
924003 GAAAAAAGAGAAAATAAATAAAAATAAA-AAAGTCAAAGGGAAAAAATTA
1 GAAAAAATAGAAAA-AAA-AAAAAAAAATAAAGTCAAAGGGAAAAAATTA
*
924052 AATAAAAATTAAAGAAAAAAACAAAAAAAAATAGTAAGTCAAA-GGAAAAAA-TA
1 GA-AAAAA-T--AGAAAAAAA-AAAAAAAAATA--AAGTCAAAGGGAAAAAATTA
*
924105 GAAAAAATAGAAAAAAAATAAAAAAATAAA
1 GAAAAAATAGAAAAAAAAAAAAAAAATAAA
924135 AAATAATAAT
Statistics
Matches: 70, Mismatches: 6, Indels: 17
0.75 0.06 0.18
Matches are distributed among these distances:
46 2 0.03
48 10 0.14
49 10 0.14
50 5 0.07
51 1 0.01
52 16 0.23
53 10 0.14
54 8 0.11
55 8 0.11
ACGTcount: A:0.75, C:0.02, G:0.11, T:0.12
Consensus pattern (48 bp):
GAAAAAATAGAAAAAAAAAAAAAAAATAAAGTCAAAGGGAAAAAATTA
Found at i:924118 original size:8 final size:9
Alignment explanation
Indices: 924096--924139 Score: 54
Period size: 9 Copynumber: 5.0 Consensus size: 9
924086 TAAGTCAAAG
924096 GAAAAAATA
1 GAAAAAATA
924105 GAAAAAATA
1 GAAAAAATA
*
924114 GAAAAAAAA
1 GAAAAAATA
*
924123 TAAAAAA-A
1 GAAAAAATA
*
924131 TAAAAAATA
1 GAAAAAATA
924140 ATAATTATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
8 8 0.25
9 24 0.75
ACGTcount: A:0.82, C:0.00, G:0.07, T:0.11
Consensus pattern (9 bp):
GAAAAAATA
Found at i:924119 original size:19 final size:18
Alignment explanation
Indices: 924097--924185 Score: 72
Period size: 18 Copynumber: 4.6 Consensus size: 18
924087 AAGTCAAAGG
924097 AAAAAATAGAAAAAATAGAA
1 AAAAAATA-AAAAAATA-AA
924117 AAAAAATAAAAAAATAAA
1 AAAAAATAAAAAAATAAA
*
924135 AAATAATAATTATAAAATAAA
1 AAAAAATAA--A-AAAATAAA
*
924156 TGAAAAAA-AAGATAAATAAA
1 --AAAAAATAA-AAAAATAAA
*
924176 AATAAATAAA
1 AAAAAATAAA
924186 GTTGTGTAGA
Statistics
Matches: 58, Mismatches: 5, Indels: 14
0.75 0.06 0.18
Matches are distributed among these distances:
18 16 0.28
19 10 0.17
20 16 0.28
21 9 0.16
22 2 0.03
23 5 0.09
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17
Consensus pattern (18 bp):
AAAAAATAAAAAAATAAA
Found at i:924136 original size:55 final size:55
Alignment explanation
Indices: 924032--924139 Score: 132
Period size: 55 Copynumber: 2.0 Consensus size: 55
924022 AAAAATAAAA
* * *
924032 AAGTCAAAGGGAAAAAATTAAATAAAAATTAAAGAAAAAAACAAAAAAAAATAGT
1 AAGTCAAAGGGAAAAAATTAAATAAAAATGAAAAAAAAAAAAAAAAAAAAATAGT
*
924087 AAGTCAAA-GGAAAAAA-TAGA-AAAAATAGAAAAAAAATAAAAAAATAAAAAATA
1 AAGTCAAAGGGAAAAAATTAAATAAAAAT-GAAAAAAAA-AAAAAAA-AAAAAATA
924140 ATAATTATAA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
52 6 0.13
53 10 0.22
54 14 0.30
55 16 0.35
ACGTcount: A:0.74, C:0.03, G:0.10, T:0.13
Consensus pattern (55 bp):
AAGTCAAAGGGAAAAAATTAAATAAAAATGAAAAAAAAAAAAAAAAAAAAATAGT
Found at i:924142 original size:18 final size:18
Alignment explanation
Indices: 924097--924143 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 18
924087 AAGTCAAAGG
924097 AAAAAATAGAAAAAATAGAA
1 AAAAAATA-AAAAAATAG-A
924117 AAAAAATAAAAAAATA-A
1 AAAAAATAAAAAAATAGA
924134 AAAATAATAA
1 AAAA-AATAA
924144 TTATAAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.19
18 5 0.19
19 8 0.31
20 8 0.31
ACGTcount: A:0.83, C:0.00, G:0.04, T:0.13
Consensus pattern (18 bp):
AAAAAATAAAAAAATAGA
Found at i:924156 original size:25 final size:26
Alignment explanation
Indices: 924122--924185 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
924112 TAGAAAAAAA
* *
924122 ATAAAA-AAATAAAAAATA-ATAATT
1 ATAAAATAAATAAAAAAAAGATAAAT
924146 ATAAAATAAATGAAAAAAAAGATAAAT
1 ATAAAATAAAT-AAAAAAAAGATAAAT
924173 A-AAAATAAATAAA
1 ATAAAATAAATAAA
924186 GTTGTGTAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
24 6 0.17
25 7 0.20
26 16 0.46
27 6 0.17
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (26 bp):
ATAAAATAAATAAAAAAAAGATAAAT
Found at i:924162 original size:27 final size:26
Alignment explanation
Indices: 924100--924182 Score: 71
Period size: 26 Copynumber: 3.2 Consensus size: 26
924090 TCAAAGGAAA
* * * *
924100 AAATAGAAAAAATAGAAAAAAAATAAAA
1 AAAT-GAAAAAAAAGATAAATAA-AAAT
* *
924128 AAAT-AAAAAATA-ATAATTATAAAAT
1 AAATGAAAAAAAAGATAAATA-AAAAT
924153 AAATGAAAAAAAAGATAAATAAAAAT
1 AAATGAAAAAAAAGATAAATAAAAAT
924179 AAAT
1 AAAT
924183 AAAGTTGTGT
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
25 11 0.24
26 25 0.54
27 6 0.13
28 4 0.09
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (26 bp):
AAATGAAAAAAAAGATAAATAAAAAT
Found at i:924236 original size:14 final size:15
Alignment explanation
Indices: 924200--924240 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
924190 TGTAGAAATG
*
924200 ATAAAATAATAAGAA
1 ATAAAATAAAAAGAA
*
924215 ATAAAATAAAAATAA
1 ATAAAATAAAAAGAA
924230 A-AAAATAAAAA
1 ATAAAATAAAAA
924241 AGGATCAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 10 0.42
15 14 0.58
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.17
Consensus pattern (15 bp):
ATAAAATAAAAAGAA
Found at i:925466 original size:28 final size:28
Alignment explanation
Indices: 925425--925489 Score: 105
Period size: 28 Copynumber: 2.4 Consensus size: 28
925415 AAAAAAAACA
*
925425 TTTTCAAAACTATATATTATAAATATGT
1 TTTTCAAAATTATATATTATAAATATGT
*
925453 TTTTCAAAATTATATATTATATATATGT
1 TTTTCAAAATTATATATTATAAATATGT
925481 TTTT-AAAAT
1 TTTTCAAAAT
925490 ATTTTCAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 5 0.14
28 30 0.86
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.51
Consensus pattern (28 bp):
TTTTCAAAATTATATATTATAAATATGT
Found at i:925497 original size:38 final size:38
Alignment explanation
Indices: 925435--925643 Score: 192
Period size: 38 Copynumber: 5.4 Consensus size: 38
925425 TTTTCAAAAC
* * * * *
925435 TATATATTATAAATATGTTTTTCAAAATTATATATTATA
1 TATATATTTTAAAAAT-ATTTTAAAAACTATATATTATA
* * *
925474 TATATGTTTTTAAAATATTTTCAAAACCATAATATATATATA
1 TATATATTTTAAAAATATTTT-AAAAAC-T-ATATAT-TATA
*
925516 TATACATATATTCAAAAATATTTT-AAAACTATATA-T-TA
1 TAT--ATAT-TTTAAAAATATTTTAAAAACTATATATTATA
* *
925554 TATAT-TTTTCAAAATGTTTTAAAAACTATATATTATA
1 TATATATTTTAAAAATATTTTAAAAACTATATATTATA
* * *
925591 TATATATATTCAAAATATTTAAAAAACTATATATTATA
1 TATATATTTTAAAAATATTTTAAAAACTATATATTATA
925629 TATATATTTTAAAAA
1 TATATATTTTAAAAA
925644 CAAGAAAAAA
Statistics
Matches: 139, Mismatches: 20, Indels: 23
0.76 0.11 0.13
Matches are distributed among these distances:
34 11 0.08
35 12 0.09
36 3 0.02
37 7 0.05
38 51 0.37
39 16 0.12
40 1 0.01
41 11 0.08
42 8 0.06
43 4 0.03
44 3 0.02
45 12 0.09
ACGTcount: A:0.47, C:0.05, G:0.01, T:0.46
Consensus pattern (38 bp):
TATATATTTTAAAAATATTTTAAAAACTATATATTATA
Found at i:925509 original size:69 final size:70
Alignment explanation
Indices: 925362--925517 Score: 171
Period size: 69 Copynumber: 2.2 Consensus size: 70
925352 AATAAAATAA
* * *
925362 ATAATATATATATATAATCATTTTTTTAAAACTATATATTCTATATGTTTTTTAAAAAAAACATT
1 ATAATATATATATATAATCATTTTTTCAAAACTATATATTATATATATTTTTT---AAAAACATT
925427 TTCAAAAC
63 TTCAAAAC
* *
925435 -T-ATATAT-TATA-AAT-ATGTTTTTCAAAATTATATATTATATATATGTTTTT-AAAATATTT
1 ATAATATATATATATAATCAT-TTTTTCAAAACTATATATTATATATAT-TTTTTAAAAACATTT
925494 TCAAAACC
64 TCAAAA-C
925502 ATAATATATATATATA
1 ATAATATATATATATA
925518 TACATATATT
Statistics
Matches: 71, Mismatches: 5, Indels: 16
0.77 0.05 0.17
Matches are distributed among these distances:
66 14 0.20
67 1 0.01
68 3 0.04
69 32 0.45
70 13 0.18
71 7 0.10
72 1 0.01
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (70 bp):
ATAATATATATATATAATCATTTTTTCAAAACTATATATTATATATATTTTTTAAAAACATTTTC
AAAAC
Found at i:925549 original size:33 final size:34
Alignment explanation
Indices: 925510--925633 Score: 142
Period size: 34 Copynumber: 3.5 Consensus size: 34
925500 CCATAATATA
*
925510 TATATATATACATATATTCAAAAATATTTT-AAAAC
1 TATATAT-TATATATATTC-AAAATATTTTAAAAAC
* *
925545 TATATATTATATATTTTTCAAAATGTTTTAAAAAC
1 TATATATTATATA-TATTCAAAATATTTTAAAAAC
*
925580 TATATATTATATATATATATTCAAAATATTTAAAAAAC
1 --TATA-TAT-TATATATATTCAAAATATTTTAAAAAC
925618 TATATATTATATATAT
1 TATATATTATATATAT
925634 ATTTTAAAAA
Statistics
Matches: 77, Mismatches: 6, Indels: 13
0.80 0.06 0.14
Matches are distributed among these distances:
34 23 0.30
35 19 0.25
36 4 0.05
37 4 0.05
38 21 0.27
39 6 0.08
ACGTcount: A:0.48, C:0.06, G:0.01, T:0.45
Consensus pattern (34 bp):
TATATATTATATATATTCAAAATATTTTAAAAAC
Found at i:925653 original size:38 final size:38
Alignment explanation
Indices: 925574--925653 Score: 106
Period size: 38 Copynumber: 2.1 Consensus size: 38
925564 AAAATGTTTT
* * ***
925574 AAAAACTATATATTATATATATATATTCAAAATATTTA
1 AAAAACTATATATTATATATATATATTAAAAACAAGAA
*
925612 AAAAACTATATATTATATATATATTTTAAAAACAAGAA
1 AAAAACTATATATTATATATATATATTAAAAACAAGAA
925650 AAAA
1 AAAA
925654 CGAAAACTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.57, C:0.05, G:0.01, T:0.36
Consensus pattern (38 bp):
AAAAACTATATATTATATATATATATTAAAAACAAGAA
Found at i:928097 original size:22 final size:22
Alignment explanation
Indices: 928062--928117 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
928052 TTCATATACT
*
928062 TATTAATAATTTTAATAATATAA
1 TATT-ATATTTTTAATAATATAA
*
928085 TATTATATTTTTAATATTATAA
1 TATTATATTTTTAATAATATAA
*
928107 TAATATTATTT
1 TATTA-TATTT
928118 AACTATAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 20 0.69
23 9 0.31
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TATTATATTTTTAATAATATAA
Found at i:928147 original size:11 final size:11
Alignment explanation
Indices: 928076--928153 Score: 56
Period size: 11 Copynumber: 7.2 Consensus size: 11
928066 AATAATTTTA
*
928076 ATAATA-TAAT
1 ATAATATTATT
*
928086 ATTATATT-TT
1 ATAATATTATT
*
928096 -TAATATTATA
1 ATAATATTATT
928106 ATAATATTATT
1 ATAATATTATT
*
928117 -TAACTATAAGTT
1 ATAA-TATTA-TT
*
928129 AATTATATTATT
1 -ATAATATTATT
928141 ATAATATTATT
1 ATAATATTATT
928152 AT
1 AT
928154 TTTAATAAAT
Statistics
Matches: 52, Mismatches: 9, Indels: 13
0.70 0.12 0.18
Matches are distributed among these distances:
9 6 0.12
10 10 0.19
11 26 0.50
12 4 0.08
13 4 0.08
14 2 0.04
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (11 bp):
ATAATATTATT
Found at i:928208 original size:29 final size:30
Alignment explanation
Indices: 928135--928208 Score: 100
Period size: 29 Copynumber: 2.5 Consensus size: 30
928125 AGTTAATTAT
* *
928135 ATTATTATAATATTATTATTTTAATAAATT
1 ATTAATATAATATTATTATTTTAATAAATA
928165 A-TAACT-TAATATTATTATTTTAATAAATA
1 ATTAA-TATAATATTATTATTTTAATAAATA
928194 ATTAATATAAT-TTAT
1 ATTAATATAATATTAT
928209 AATATATTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
29 30 0.77
30 9 0.23
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (30 bp):
ATTAATATAATATTATTATTTTAATAAATA
Found at i:935825 original size:14 final size:14
Alignment explanation
Indices: 935806--935832 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
935796 ATGATTTAAT
935806 GTGATTGAAATGAC
1 GTGATTGAAATGAC
935820 GTGATTGAAATGA
1 GTGATTGAAATGA
935833 TGATTAAGGT
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:0.37, C:0.04, G:0.30, T:0.30
Consensus pattern (14 bp):
GTGATTGAAATGAC
Found at i:936193 original size:39 final size:39
Alignment explanation
Indices: 936146--936227 Score: 164
Period size: 39 Copynumber: 2.1 Consensus size: 39
936136 TAATTTAGAC
936146 ACTTAGACACACTCATTAATTATTCTTATTCATAATTGG
1 ACTTAGACACACTCATTAATTATTCTTATTCATAATTGG
936185 ACTTAGACACACTCATTAATTATTCTTATTCATAATTGG
1 ACTTAGACACACTCATTAATTATTCTTATTCATAATTGG
936224 ACTT
1 ACTT
936228 TAGGGAAATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.33, C:0.18, G:0.07, T:0.41
Consensus pattern (39 bp):
ACTTAGACACACTCATTAATTATTCTTATTCATAATTGG
Found at i:940099 original size:35 final size:36
Alignment explanation
Indices: 939988--940099 Score: 190
Period size: 36 Copynumber: 3.1 Consensus size: 36
939978 ATACAATCTG
*
939988 TCCATCACCATTATCACGCCTATATCATCACCATCT
1 TCCATCACCATTATCACGCCTATATCATCACCATAT
*
940024 TCCATCACCATTATCACGCCTATATCATCACCATAG
1 TCCATCACCATTATCACGCCTATATCATCACCATAT
*
940060 TCCATCACCA-TATCACGCCTATATCATCACCAAAT
1 TCCATCACCATTATCACGCCTATATCATCACCATAT
940095 TCCAT
1 TCCAT
940100 TTTCCATTTC
Statistics
Matches: 72, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
35 28 0.39
36 44 0.61
ACGTcount: A:0.30, C:0.38, G:0.04, T:0.29
Consensus pattern (36 bp):
TCCATCACCATTATCACGCCTATATCATCACCATAT
Found at i:940274 original size:20 final size:20
Alignment explanation
Indices: 940251--940288 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
940241 CCATTTCAAA
*
940251 TTCTTTCCTTTTTTCATTAT
1 TTCTTTCCTTTTTCCATTAT
940271 TTCTTTCCTTTTTCCATT
1 TTCTTTCCTTTTTCCATT
940289 TCAATTTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.08, C:0.24, G:0.00, T:0.68
Consensus pattern (20 bp):
TTCTTTCCTTTTTCCATTAT
Found at i:940525 original size:12 final size:11
Alignment explanation
Indices: 940493--940545 Score: 54
Period size: 12 Copynumber: 4.5 Consensus size: 11
940483 AAAGTGCTAC
*
940493 AAAAAAAAAAG
1 AAAAGAAAAAG
940504 CAACAAGAAAGAAG
1 -AA-AAGAAA-AAG
940518 AAAAGAAAAGAG
1 AAAAGAAAA-AG
940530 AAAAGAAAAA-
1 AAAAGAAAAAG
940540 AAAAGA
1 AAAAGA
940546 CTCCTACATC
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
10 6 0.16
11 2 0.05
12 19 0.51
13 7 0.19
14 3 0.08
ACGTcount: A:0.79, C:0.04, G:0.17, T:0.00
Consensus pattern (11 bp):
AAAAGAAAAAG
Found at i:944606 original size:35 final size:36
Alignment explanation
Indices: 944495--944606 Score: 190
Period size: 36 Copynumber: 3.1 Consensus size: 36
944485 ATACAATTTG
*
944495 TCCATCACCATTATCACGCCTATATCATCACCATCT
1 TCCATCACCATTATCACGCCTATATCATCACCATAT
*
944531 TCCATCACCATTATCACGCCTATATCATCACCATAG
1 TCCATCACCATTATCACGCCTATATCATCACCATAT
*
944567 TCCATCACCA-TATCACGCCTATATCATCACCAAAT
1 TCCATCACCATTATCACGCCTATATCATCACCATAT
944602 TCCAT
1 TCCAT
944607 TTTCCATTTC
Statistics
Matches: 72, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
35 28 0.39
36 44 0.61
ACGTcount: A:0.30, C:0.38, G:0.04, T:0.29
Consensus pattern (36 bp):
TCCATCACCATTATCACGCCTATATCATCACCATAT
Found at i:949871 original size:70 final size:67
Alignment explanation
Indices: 949761--949912 Score: 241
Period size: 70 Copynumber: 2.2 Consensus size: 67
949751 TTACATAGGT
* *
949761 AATTCATATTCATAATCAACAACAACATAGAAAACATAAGCAAACATTGGAAAATTAATAAATCT
1 AATTCATGTTCATAATCAACAACAACATAGAAAACATAAGCAAACATTGGAAAATTAATAAACCT
949826 CA
66 CA
* *
949828 AATTCATGTTCATAATCAACATGAACAACATAGAAAACATAAGCAAACATTGGCAAATTGATAAA
1 AATTCATGTTCATAATCAAC---AACAACATAGAAAACATAAGCAAACATTGGAAAATTAATAAA
949893 CCTCA
63 CCTCA
949898 AATTCATGTTCATAA
1 AATTCATGTTCATAA
949913 ACACTTCAAT
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
67 19 0.24
70 59 0.76
ACGTcount: A:0.50, C:0.17, G:0.08, T:0.25
Consensus pattern (67 bp):
AATTCATGTTCATAATCAACAACAACATAGAAAACATAAGCAAACATTGGAAAATTAATAAACCT
CA
Found at i:954052 original size:37 final size:37
Alignment explanation
Indices: 953976--954052 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 37
953966 TTTTTATATT
*
953976 TTTAATTTTGTAAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
* * *
954013 TTTAATTTTTTAAAGAAAATT-TATAAATATTTTACAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTAT-CAA
954050 TTT
1 TTT
954053 GTAATATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 11 0.31
37 24 0.69
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.48
Consensus pattern (37 bp):
TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
Found at i:954234 original size:20 final size:20
Alignment explanation
Indices: 954198--954235 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
954188 ATCTTATTTC
**
954198 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
954218 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
954236 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:958383 original size:7 final size:7
Alignment explanation
Indices: 958371--958395 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
958361 ACGATGACAT
958371 GTGTGTC
1 GTGTGTC
958378 GTGTGTC
1 GTGTGTC
958385 GTGTGTC
1 GTGTGTC
958392 GTGT
1 GTGT
958396 ACCATGATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.44, T:0.44
Consensus pattern (7 bp):
GTGTGTC
Found at i:959186 original size:20 final size:20
Alignment explanation
Indices: 959161--959516 Score: 109
Period size: 20 Copynumber: 15.7 Consensus size: 20
959151 TTAAATTATG
*
959161 GCATCCATTCATGCCCTAAT
1 GCATCCTTTCATGCCCTAAT
959181 GCATCCTTTCATGCCCTAAT
1 GCATCCTTTCATGCCCTAAT
* ***
959201 GCGTCCTTTCATGTATTTTAATTAT
1 GCATCCTTTCATG--CCCT-A--AT
*
959226 GACATCCTTTCATGCCTTAAT
1 G-CATCCTTTCATGCCCTAAT
**
959247 GCATCCTTTCATGCATTTTAATTAT
1 GCATCCTTTCATGC--CCT-A--AT
*
959272 GGCATCCTTTCATGCCTTAAT
1 -GCATCCTTTCATGCCCTAAT
**
959293 GCATCCTTTCATGCATTTTAATTAT
1 GCATCCTTTCATGC--CCT-A--AT
* *
959318 GGCATCCTTTCACGCCTTAAT
1 -GCATCCTTTCATGCCCTAAT
**
959339 GCATCCTTTCATGCATTTTAATTAT
1 GCATCCTTTCATGC--CCT-A--AT
**
959364 GGCATCCTTTCATGCATTTTTATTAT
1 -GCATCCTTTCATGC---CCTA--AT
*
959390 GGCATCCTTTCATGCCTTAAT
1 -GCATCCTTTCATGCCCTAAT
* **
959411 GCATACTTTCATGCATTTTAATTAT
1 GCATCCTTTCATGC--CCT-A--AT
*
959436 GGCATCCTTTCATGCCTTAAT
1 -GCATCCTTTCATGCCCTAAT
**
959457 GCATCCTTTCATGCATTTTAATTAT
1 GCATCCTTTCATGC--CCT-A--AT
*
959482 GGCATCCTTTCATGCCTTAAT
1 -GCATCCTTTCATGCCCTAAT
959503 GCATCCTTTCATGC
1 GCATCCTTTCATGC
959517 ATTTTTACAT
Statistics
Matches: 276, Mismatches: 23, Indels: 74
0.74 0.06 0.20
Matches are distributed among these distances:
20 112 0.41
21 13 0.05
22 11 0.04
23 14 0.05
24 10 0.04
25 13 0.05
26 99 0.36
27 4 0.01
ACGTcount: A:0.22, C:0.25, G:0.11, T:0.42
Consensus pattern (20 bp):
GCATCCTTTCATGCCCTAAT
Found at i:959254 original size:46 final size:46
Alignment explanation
Indices: 959181--959378 Score: 351
Period size: 46 Copynumber: 4.3 Consensus size: 46
959171 ATGCCCTAAT
* * *
959181 GCATCCTTTCATGCCCTAATGCGTCCTTTCATGTATTTTAATTATG
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAATTATG
*
959227 ACATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAATTATG
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAATTATG
959273 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAATTATG
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAATTATG
*
959319 GCATCCTTTCACGCCTTAATGCATCCTTTCATGCATTTTAATTATG
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAATTATG
959365 GCATCCTTTCATGC
1 GCATCCTTTCATGC
959379 ATTTTTATTA
Statistics
Matches: 145, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 145 1.00
ACGTcount: A:0.21, C:0.25, G:0.11, T:0.42
Consensus pattern (46 bp):
GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAATTATG
Found at i:959396 original size:118 final size:118
Alignment explanation
Indices: 959247--959496 Score: 473
Period size: 118 Copynumber: 2.1 Consensus size: 118
959237 ATGCCTTAAT
*
959247 GCATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTT
1 GCATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGCATACTTTCATGCATTTT
959312 AATTATGGCATCCTTTCACGCCTTAATGCATCCTTTCATGCATTTTAATTATG
66 AATTATGGCATCCTTTCACGCCTTAATGCATCCTTTCATGCATTTTAATTATG
*
959365 GCATCCTTTCATGCATTTTTATTATGGCATCCTTTCATGCCTTAATGCATACTTTCATGCATTTT
1 GCATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGCATACTTTCATGCATTTT
*
959430 AATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAATTATG
66 AATTATGGCATCCTTTCACGCCTTAATGCATCCTTTCATGCATTTTAATTATG
959483 GCATCCTTTCATGC
1 GCATCCTTTCATGC
959497 CTTAATGCAT
Statistics
Matches: 129, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
118 129 1.00
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.44
Consensus pattern (118 bp):
GCATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGCATACTTTCATGCATTTT
AATTATGGCATCCTTTCACGCCTTAATGCATCCTTTCATGCATTTTAATTATG
Found at i:959420 original size:46 final size:46
Alignment explanation
Indices: 959365--959521 Score: 296
Period size: 46 Copynumber: 3.4 Consensus size: 46
959355 TTTAATTATG
*
959365 GCATCCTTTCATGCATTTTTATTATGGCATCCTTTCATGCCTTAAT
1 GCATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAAT
*
959411 GCATACTTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAAT
1 GCATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAAT
959457 GCATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAAT
1 GCATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAAT
959503 GCATCCTTTCATGCATTTT
1 GCATCCTTTCATGCATTTT
959522 TACATATTTT
Statistics
Matches: 108, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 108 1.00
ACGTcount: A:0.21, C:0.24, G:0.11, T:0.45
Consensus pattern (46 bp):
GCATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAAT
Found at i:959423 original size:164 final size:160
Alignment explanation
Indices: 959148--959521 Score: 599
Period size: 164 Copynumber: 2.3 Consensus size: 160
959138 TCCATTTATA
* * * ** *
959148 CATTTAAATTATGGCATCCATTCATGCCCTAATGCATCCTTTCATGC--CCTAATGCGTCCTTTC
1 CATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAATGCATCCTTTC
* *
959211 ATGTATTTTAATTATGACATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAATTATGGCA
66 ATGCATTTTAATTATGACATCCTTTCATGCCTTAATGCATACTTTCATGCATTTTAATTATGGCA
959276 TCCTTTCATGCCTTAATGCATCCTTTCATG
131 TCCTTTCATGCCTTAATGCATCCTTTCATG
*
959306 CATTTTAATTATGGCATCCTTTCACGCCTTAATGCATCCTTTCATGCATTTTAATTATGGCATCC
1 CATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTT-A--AT-GCATCC
* *
959371 TTTCATGCATTTTTATTATGGCATCCTTTCATGCCTTAATGCATACTTTCATGCATTTTAATTAT
62 TTTCATGCATTTTAATTATGACATCCTTTCATGCCTTAATGCATACTTTCATGCATTTTAATTAT
959436 GGCATCCTTTCATGCCTTAATGCATCCTTTCATG
127 GGCATCCTTTCATGCCTTAATGCATCCTTTCATG
959470 CATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTT
1 CATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTT
959522 TACATATTTT
Statistics
Matches: 198, Mismatches: 12, Indels: 6
0.92 0.06 0.03
Matches are distributed among these distances:
158 43 0.22
160 1 0.01
161 1 0.01
163 2 0.01
164 151 0.76
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.43
Consensus pattern (160 bp):
CATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAATGCATCCTTTC
ATGCATTTTAATTATGACATCCTTTCATGCCTTAATGCATACTTTCATGCATTTTAATTATGGCA
TCCTTTCATGCCTTAATGCATCCTTTCATG
Found at i:960035 original size:22 final size:23
Alignment explanation
Indices: 959994--960046 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 23
959984 CTGGTATCGA
959994 TACCCTTACCATGATATTGATAC
1 TACCCTTACCATGATATTGATAC
* *
960017 TACCC-TACTATGGTATTGATAC
1 TACCCTTACCATGATATTGATAC
*
960039 -CCCCTTAC
1 TACCCTTAC
960047 GGTATCGATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 3 0.12
22 18 0.69
23 5 0.19
ACGTcount: A:0.26, C:0.30, G:0.09, T:0.34
Consensus pattern (23 bp):
TACCCTTACCATGATATTGATAC
Found at i:960061 original size:95 final size:95
Alignment explanation
Indices: 959927--960115 Score: 288
Period size: 95 Copynumber: 2.0 Consensus size: 95
959917 GATACTTCTA
* * *
959927 TACTATGGTACCGATACCCCCTTCCGGTATCAATACCAATTTTAAATTCGATGTTTCCTGGTATC
1 TACTATGGTACCGATACCCCCTTACGGTATCAATACCAATTTTAAATTCGATGTTGCCTAGTATC
*
959992 GATACCCTTACCATGATATTGATACTACCC
66 GATACCCTTACCATGATATCGATACTACCC
** * * *
960022 TACTATGGTATTGATACCCCCTTACGGTATCGATTCCAATTTTAGATTCGATGTTGCCTAGTATC
1 TACTATGGTACCGATACCCCCTTACGGTATCAATACCAATTTTAAATTCGATGTTGCCTAGTATC
*
960087 GATACCCTTACCATGGTATCGATACTACC
66 GATACCCTTACCATGATATCGATACTACC
960116 TCGTAGGTAT
Statistics
Matches: 84, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
95 84 1.00
ACGTcount: A:0.25, C:0.26, G:0.14, T:0.34
Consensus pattern (95 bp):
TACTATGGTACCGATACCCCCTTACGGTATCAATACCAATTTTAAATTCGATGTTGCCTAGTATC
GATACCCTTACCATGATATCGATACTACCC
Found at i:960147 original size:95 final size:93
Alignment explanation
Indices: 959953--960152 Score: 215
Period size: 95 Copynumber: 2.1 Consensus size: 93
959943 CCCCCTTCCG
* * * *
959953 GTATCAATACCAATTTTAAATTCGATGTTTCCTGGTATCGATACCCTTACCATGATATTGATACT
1 GTATCGATACCAATTTTAAATTCGATGTTGCCTAGTATCGATACCCTTACCATGATATCGATACT
* ** *
960018 ACCCTACTATGGTATTGATACCCCCTTACG
66 ACCCTACTATGATATTGAT--CCCAATACA
* * *
960048 GTATCGATTCCAATTTTAGATTCGATGTTGCCTAGTATCGATACCCTTACCATGGTATCGATACT
1 GTATCGATACCAATTTTAAATTCGATGTTGCCTAGTATCGATACCCTTACCATGATATCGATACT
* *
960113 ACCTCGTAGGTATCGATATTGAT-TCAAT-CA
66 ACC-C-TA-CTAT-GATATTGATCCCAATACA
960143 GTATCGATAC
1 GTATCGATAC
960153 TACACAGATA
Statistics
Matches: 87, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
95 71 0.82
96 3 0.03
97 2 0.02
98 3 0.03
99 8 0.09
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (93 bp):
GTATCGATACCAATTTTAAATTCGATGTTGCCTAGTATCGATACCCTTACCATGATATCGATACT
ACCCTACTATGATATTGATCCCAATACA
Found at i:961171 original size:21 final size:21
Alignment explanation
Indices: 961142--961183 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
961132 AAACTATTAT
961142 TATTATTTTCAAATGTTAAAA
1 TATTATTTTCAAATGTTAAAA
*
961163 TATTTTTTTCAAATGTTAAAA
1 TATTATTTTCAAATGTTAAAA
961184 AATAACTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (21 bp):
TATTATTTTCAAATGTTAAAA
Found at i:961193 original size:23 final size:21
Alignment explanation
Indices: 961147--961193 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
961137 ATTATTATTA
**
961147 TTTTCAAATGTTAAAATATTT
1 TTTTCAAATGTTAAAATAACT
961168 TTTTCAAATGTTAAAAAATAACT
1 TTTTCAAATGTT--AAAATAACT
961191 TTT
1 TTT
961194 AAAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 12 0.55
23 10 0.45
ACGTcount: A:0.40, C:0.06, G:0.04, T:0.49
Consensus pattern (21 bp):
TTTTCAAATGTTAAAATAACT
Found at i:961282 original size:20 final size:21
Alignment explanation
Indices: 961259--961309 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
961249 TTCAAGGCAT
961259 TTTTTAA-ATGTT-AAAAAATA
1 TTTTTAACAT-TTGAAAAAATA
961279 -TTTTAACATTTGAAAAAATA
1 TTTTTAACATTTGAAAAAATA
961299 -TTTTAACATTT
1 TTTTTAACATTT
961310 TCATATGTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.28
20 21 0.72
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (21 bp):
TTTTTAACATTTGAAAAAATA
Found at i:961295 original size:21 final size:20
Alignment explanation
Indices: 961271--961309 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
961261 TTTAAATGTT
961271 AAAAAATATTTTAACATTTG
1 AAAAAATATTTTAACATTTG
961291 AAAAAATATTTTAACATTT
1 AAAAAATATTTTAACATTT
961310 TCATATGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (20 bp):
AAAAAATATTTTAACATTTG
Found at i:961992 original size:17 final size:17
Alignment explanation
Indices: 961967--961999 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
961957 TCGGGCTTGA
*
961967 AGTATCGATATTGCACG
1 AGTACCGATATTGCACG
961984 AGTACCGATATTGCAC
1 AGTACCGATATTGCAC
962000 TAATAAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.27
Consensus pattern (17 bp):
AGTACCGATATTGCACG
Found at i:965571 original size:297 final size:297
Alignment explanation
Indices: 965037--965635 Score: 867
Period size: 297 Copynumber: 2.0 Consensus size: 297
965027 GAAAATAAAA
* * * *
965037 AAAATGAAGGTTTGGTACAATCACATACATCTGAAAAGAGAAGTCCAAAGTTATCAAAGATCAAA
1 AAAATGAAGGTTTAGCACAATCACATACATCTGAAAAGAGAAGCCCAAAGTTATCAAAGACCAAA
* * * *
965102 TATGACATTGCAAAGTCAGTGGCCAAGAATTTCTTGAAAATAAGAAAAGCCATTGATATTTCTGA
66 TATGACATTGCAAAGTCAATGGCCAAGAATTTCTTGAAAACAAGAAAAGCCATTGATACTTATGA
* * *
965167 GGTTTAGAAGAGAAAGCGAAGGAAGAAGAACAAAAGTGTTTCAGAAAGCAGCAAAGTATCTAAAA
131 GGTTCAGAAGAGAAAGCGAAGGAAGAAGAACAAAAGTATATCAGAAAGCAGCAAAGTATCTAAAA
* * * * *
965232 ATGATGCTAAGAAGCAAAACTCAGGGGAAGACAACCCACAAAAGGATATTATCACCAGTATGGTG
196 ATGATGCTAAGAAGCAAAACTCAAGGAAAGACAACCCACAAAAAGATACTACCACCAGTATGGTG
* * * *
965297 CATGTAGAGAAAAGCCAGCATATCCAAAAGAAAGAAG
261 CATGCAGAGAAAAACCAGAAGATCCAAAAGAAAGAAG
* * *
965334 AAAATGAAGGTTTAGCACAATCACATGCATCTGAAAAGAGAAGCCCAGAGTTATCAAAGGCCAAA
1 AAAATGAAGGTTTAGCACAATCACATACATCTGAAAAGAGAAGCCCAAAGTTATCAAAGACCAAA
* * * *
965399 TCTGACATTGCAAAGTCAATTGCCAAGAATCTT-TTGAAGACAAGAAAAGTCATTGATACTTATG
66 TATGACATTGCAAAGTCAATGGCCAAGAAT-TTCTTGAAAACAAGAAAAGCCATTGATACTTATG
* * *
965463 AGGTTCAGAAGAGAAAGCTAAGGAAGAAGAACAAGAGTATATCAGAAAGCAGCAAAGTATCTGAA
130 AGGTTCAGAAGAGAAAGCGAAGGAAGAAGAACAAAAGTATATCAGAAAGCAGCAAAGTATCTAAA
* * * *
965528 AATGATGCTAAGAAGCAGAATTCAAGGAAAGACAACCCACAAAAAGATGCTACCATCAGTATGGT
195 AATGATGCTAAGAAGCAAAACTCAAGGAAAGACAACCCACAAAAAGATACTACCACCAGTATGGT
*
965593 GCATGCAGAGAAAAACCAGAAGATCCAACAGAAAGAAG
260 GCATGCAGAGAAAAACCAGAAGATCCAAAAGAAAGAAG
965631 AAAAT
1 AAAAT
965636 ACATATCGGT
Statistics
Matches: 266, Mismatches: 35, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
297 264 0.99
298 2 0.01
ACGTcount: A:0.45, C:0.15, G:0.21, T:0.19
Consensus pattern (297 bp):
AAAATGAAGGTTTAGCACAATCACATACATCTGAAAAGAGAAGCCCAAAGTTATCAAAGACCAAA
TATGACATTGCAAAGTCAATGGCCAAGAATTTCTTGAAAACAAGAAAAGCCATTGATACTTATGA
GGTTCAGAAGAGAAAGCGAAGGAAGAAGAACAAAAGTATATCAGAAAGCAGCAAAGTATCTAAAA
ATGATGCTAAGAAGCAAAACTCAAGGAAAGACAACCCACAAAAAGATACTACCACCAGTATGGTG
CATGCAGAGAAAAACCAGAAGATCCAAAAGAAAGAAG
Found at i:968909 original size:20 final size:20
Alignment explanation
Indices: 968873--968937 Score: 94
Period size: 20 Copynumber: 3.1 Consensus size: 20
968863 CACCCGCAGC
968873 ATCCATCCCATCCATTAATAT
1 ATCCAT-CCATCCATTAATAT
*
968894 ATCCATCCACCCATTAATAT
1 ATCCATCCATCCATTAATAT
968914 ATCCATCCATCCATATATATAT
1 ATCCATCCATCCAT-TA-ATAT
968936 AT
1 AT
968938 ATATATATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
20 26 0.65
21 8 0.20
22 6 0.15
ACGTcount: A:0.35, C:0.31, G:0.00, T:0.34
Consensus pattern (20 bp):
ATCCATCCATCCATTAATAT
Found at i:968931 original size:2 final size:2
Alignment explanation
Indices: 968926--968955 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
968916 CCATCCATCC
968926 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
968956 GATTTCAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:969381 original size:17 final size:17
Alignment explanation
Indices: 969332--969381 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
969322 TTGTTCATGT
969332 TTTGGTTTCTATGAATG
1 TTTGGTTTCTATGAATG
*
969349 TTTGAG----TATCAATG
1 TTTG-GTTTCTATGAATG
969363 TTTGGTTTCTATGAATG
1 TTTGGTTTCTATGAATG
969380 TT
1 TT
969382 AGAAGAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 10
0.68 0.05 0.26
Matches are distributed among these distances:
13 1 0.04
14 11 0.42
17 13 0.50
18 1 0.04
ACGTcount: A:0.20, C:0.06, G:0.22, T:0.52
Consensus pattern (17 bp):
TTTGGTTTCTATGAATG
Found at i:969910 original size:21 final size:20
Alignment explanation
Indices: 969886--969937 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
969876 AAAAAATTAT
* *
969886 AAAATAAATAATATAAGGGAA
1 AAAATAAATAATAAAACGG-A
* *
969907 AAAATAAAAAATAAAACGGT
1 AAAATAAATAATAAAACGGA
969927 AAAATAAATAA
1 AAAATAAATAA
969938 ACATAAAATA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 10 0.38
21 16 0.62
ACGTcount: A:0.71, C:0.02, G:0.10, T:0.17
Consensus pattern (20 bp):
AAAATAAATAATAAAACGGA
Found at i:969986 original size:22 final size:22
Alignment explanation
Indices: 969942--970006 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 22
969932 AAATAAACAT
* *
969942 AAAATAAAACAAAATG--AATA
1 AAAAGAAAACAAAAAGAAAATA
*
969962 AAAAGAAATA-AAAAATAAAATA
1 AAAAGAAA-ACAAAAAGAAAATA
969984 AAAAGAAAACAAAAAGAAAATA
1 AAAAGAAAACAAAAAGAAAATA
970006 A
1 A
970007 GAATAAGAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
20 11 0.30
21 2 0.05
22 24 0.65
ACGTcount: A:0.80, C:0.03, G:0.06, T:0.11
Consensus pattern (22 bp):
AAAAGAAAACAAAAAGAAAATA
Found at i:970017 original size:12 final size:12
Alignment explanation
Indices: 970002--970036 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
969992 ACAAAAAGAA
970002 AATAAGAATAAG
1 AATAAGAATAAG
970014 AATAAGAATAAG
1 AATAAGAATAAG
970026 AATAAGAATAA
1 AATAAGAATAA
970037 TATATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.17
Consensus pattern (12 bp):
AATAAGAATAAG
Found at i:970025 original size:18 final size:18
Alignment explanation
Indices: 970002--970036 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
969992 ACAAAAAGAA
970002 AATAAGAATAAGAATAAG
1 AATAAGAATAAGAATAAG
970020 AATAAGAATAAGAATAA
1 AATAAGAATAAGAATAA
970037 TATATATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.17
Consensus pattern (18 bp):
AATAAGAATAAGAATAAG
Found at i:970093 original size:20 final size:21
Alignment explanation
Indices: 970068--970139 Score: 80
Period size: 20 Copynumber: 3.5 Consensus size: 21
970058 CATTAACAAA
*
970068 AAATAATAA-TAAAAATAAAC
1 AAATAATAATTAAAAATAAAT
970088 AAATAA-AATTAGAAAA-AAAT
1 AAATAATAATTA-AAAATAAAT
*
970108 AAATAAAAATGTAAAAATAAAT
1 AAATAATAAT-TAAAAATAAAT
970130 AAA-AATAATT
1 AAATAATAATT
970140 TTTATTCAGT
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
19 2 0.04
20 18 0.40
21 16 0.36
22 9 0.20
ACGTcount: A:0.74, C:0.01, G:0.03, T:0.22
Consensus pattern (21 bp):
AAATAATAATTAAAAATAAAT
Found at i:970564 original size:19 final size:19
Alignment explanation
Indices: 970528--970569 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
970518 ACGAGAGAAT
*
970528 CGCAACGCGAAATAAAAAA
1 CGCAACGCGAAACAAAAAA
* *
970547 CGCAACGCGAAACCAAAAT
1 CGCAACGCGAAACAAAAAA
970566 CGCA
1 CGCA
970570 TTGCGATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.50, C:0.29, G:0.17, T:0.05
Consensus pattern (19 bp):
CGCAACGCGAAACAAAAAA
Found at i:970587 original size:19 final size:19
Alignment explanation
Indices: 970565--970676 Score: 126
Period size: 19 Copynumber: 6.1 Consensus size: 19
970555 GAAACCAAAA
*
970565 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
970584 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
970598 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
970617 TCGCGTTGCGATTGTCATT
1 TCGCGTTGCGATTTTCATT
* *
970636 TCACGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATT
*
970655 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
970675 TC
1 TC
970677 AACCAAAAGA
Statistics
Matches: 79, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
14 10 0.13
16 3 0.04
17 3 0.04
19 46 0.58
20 17 0.22
ACGTcount: A:0.12, C:0.23, G:0.19, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Done.