Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008243.1 Hibiscus syriacus cultivar Beakdansim tig00110893_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: 10265705
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 49
Found at i:774091 original size:21 final size:22
Alignment explanation
Indices: 774052--774093 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
774042 AAGGCTTCTA
*
774052 TTTTGGAAAGTTTCAAAACTTT
1 TTTTGGAAAGGTTCAAAACTTT
*
774074 TTTTGG-AAGGTTCGAAACTT
1 TTTTGGAAAGGTTCAAAACTT
774094 CTGGTCAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.43
Consensus pattern (22 bp):
TTTTGGAAAGGTTCAAAACTTT
Found at i:774997 original size:29 final size:29
Alignment explanation
Indices: 774877--774986 Score: 195
Period size: 29 Copynumber: 3.8 Consensus size: 29
774867 TTTTATATGT
774877 TCATGTA-CTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
*
774905 TCATGTAGTTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
774934 TCATGTAGCTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
774963 TCATGTAGCTCATGTCATGTTCTC
1 TCATGTAGCTCATGTCAT-TTCTC
774987 ATATCACATG
Statistics
Matches: 78, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
28 7 0.09
29 66 0.85
30 5 0.06
ACGTcount: A:0.17, C:0.21, G:0.16, T:0.45
Consensus pattern (29 bp):
TCATGTAGCTCATGTCATTTCTCTTGTGA
Found at i:775437 original size:45 final size:45
Alignment explanation
Indices: 775370--775475 Score: 128
Period size: 45 Copynumber: 2.4 Consensus size: 45
775360 TGCACTACTT
* *
775370 GTGCATCGGTGCA-TAAAATGCATTCGAT-GTTTTATTATTAATAG-
1 GTGCATCGATGCACT-AAATGCATTCGATCGTTTTATT-TTAAAAGA
* *
775414 GATGCATCGATGCACTAATTGCATTCGATCTTTTTATTTTAAAAGA
1 G-TGCATCGATGCACTAAATGCATTCGATCGTTTTATTTTAAAAGA
775460 GTGCATCGATGCACTA
1 GTGCATCGATGCACTA
775476 CCTGTGCATC
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
44 1 0.02
45 44 0.81
46 9 0.17
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.37
Consensus pattern (45 bp):
GTGCATCGATGCACTAAATGCATTCGATCGTTTTATTTTAAAAGA
Found at i:781895 original size:56 final size:53
Alignment explanation
Indices: 781811--781914 Score: 147
Period size: 56 Copynumber: 1.9 Consensus size: 53
781801 ATATTTATGT
*
781811 TCATGTACTCATGTCATTCTTGTGATCATATAGTTCATGTCAT-TTCTTGTGA
1 TCATGTACTCATGTCATTCTTGTGATCATATAGCTCATGTCATGTTCTTGTGA
*
781863 TCATGTAGCTCATGTCATTTCTCTTGTGATCATGTAGCTCATGTCATGTTCT
1 TCATGTA-CTCATGTCA--T-TCTTGTGATCATATAGCTCATGTCATGTTCT
781915 CATATCACAT
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
52 7 0.16
53 9 0.20
55 1 0.02
56 24 0.53
57 4 0.09
ACGTcount: A:0.19, C:0.19, G:0.16, T:0.45
Consensus pattern (53 bp):
TCATGTACTCATGTCATTCTTGTGATCATATAGCTCATGTCATGTTCTTGTGA
Found at i:781896 original size:29 final size:27
Alignment explanation
Indices: 781811--781914 Score: 149
Period size: 29 Copynumber: 3.8 Consensus size: 27
781801 ATATTTATGT
781811 TCATGTA-CTCATGTCA-TTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTTGTGA
* *
781836 TCATATAGTTCATGTCATTTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTTGTGA
781863 TCATGTAGCTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCA-TT-TCTTGTGA
781892 TCATGTAGCTCATGTCATGTTCT
1 TCATGTAGCTCATGTCAT-TTCT
781915 CATATCACAT
Statistics
Matches: 70, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
25 6 0.09
26 8 0.11
27 24 0.34
28 6 0.09
29 26 0.37
ACGTcount: A:0.19, C:0.19, G:0.16, T:0.45
Consensus pattern (27 bp):
TCATGTAGCTCATGTCATTTCTTGTGA
Found at i:782350 original size:64 final size:63
Alignment explanation
Indices: 782281--782437 Score: 183
Period size: 64 Copynumber: 2.5 Consensus size: 63
782271 TAATGAAGGT
* **
782281 ATGCATCGATGCATTACTTGTGCATCGGTGCA-TAAAATGCATTCGAT-GTTTTATTATTAATGG
1 ATGCATCGATGCATTACTTGTGCATCGATGCACT-AAATGCATTCGATCGTTTTATT-TTAA-AA
782344 G
63 G
* * * *
782345 ATGCATCGATGCATTCCTTATGCATCGATGCACTAATTGCATTCGATCTTTTTATTTTAAAAG
1 ATGCATCGATGCATTACTTGTGCATCGATGCACTAAATGCATTCGATCGTTTTATTTTAAAAG
* *
782408 AGTGCATCGATGCACTACCTGTGCATCGAT
1 A-TGCATCGATGCATTACTTGTGCATCGAT
782438 ACACCTTCAA
Statistics
Matches: 79, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
63 2 0.03
64 69 0.87
65 8 0.10
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.36
Consensus pattern (63 bp):
ATGCATCGATGCATTACTTGTGCATCGATGCACTAAATGCATTCGATCGTTTTATTTTAAAAG
Found at i:783765 original size:14 final size:13
Alignment explanation
Indices: 783745--783783 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 13
783735 TTTTTACGGA
783745 TAAAAAACCGGTT
1 TAAAAAACCGGTT
783758 TGAAAAAACCGG-T
1 T-AAAAAACCGGTT
783771 T-AAAAACCGGTT
1 TAAAAAACCGGTT
783783 T
1 T
783784 TTATCCGGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 9 0.38
12 2 0.08
13 3 0.12
14 10 0.42
ACGTcount: A:0.44, C:0.15, G:0.18, T:0.23
Consensus pattern (13 bp):
TAAAAAACCGGTT
Found at i:783777 original size:11 final size:12
Alignment explanation
Indices: 783745--783782 Score: 51
Period size: 11 Copynumber: 3.1 Consensus size: 12
783735 TTTTTACGGA
783745 TAAAAAACCGGTT
1 TAAAAAACCGG-T
783758 TGAAAAAACCGGT
1 T-AAAAAACCGGT
783771 T-AAAAACCGGT
1 TAAAAAACCGGT
783782 T
1 T
783783 TTTATCCGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 11 0.46
13 3 0.12
14 10 0.42
ACGTcount: A:0.45, C:0.16, G:0.18, T:0.21
Consensus pattern (12 bp):
TAAAAAACCGGT
Found at i:785855 original size:21 final size:21
Alignment explanation
Indices: 785831--785870 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
785821 TTTATTTTAT
785831 AACTTTATTTCAATTATCGTA
1 AACTTTATTTCAATTATCGTA
*
785852 AACTTTGTTTCAATTATCG
1 AACTTTATTTCAATTATCG
785871 AACTTGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.47
Consensus pattern (21 bp):
AACTTTATTTCAATTATCGTA
Found at i:785919 original size:33 final size:31
Alignment explanation
Indices: 785863--786006 Score: 163
Period size: 33 Copynumber: 4.6 Consensus size: 31
785853 ACTTTGTTTC
785863 AATTATCGAACTTGAAGTTTTTAAGTATTTG
1 AATTATCGAACTTGAAGTTTTTAAGTATTTG
785894 AATTTATCGAACTTGAAAGTTTTTAAGTATTTG
1 AA-TTATCGAACTTG-AAGTTTTTAAGTATTTG
* * *
785927 AATTTATCAAACTTGGAAGTATTTAAGTATTTC
1 AA-TTATCGAACTT-GAAGTTTTTAAGTATTTG
*
785960 AATTAT-G---TTG-AGTTAATTAAGTATTTG
1 AATTATCGAACTTGAAGTT-TTTAAGTATTTG
*
785987 AATTATCGAACTTGAGGTTT
1 AATTATCGAACTTGAAGTTT
786007 GATGTTTCTC
Statistics
Matches: 95, Mismatches: 9, Indels: 18
0.78 0.07 0.15
Matches are distributed among these distances:
26 3 0.03
27 17 0.18
28 3 0.03
31 5 0.05
32 19 0.20
33 47 0.49
34 1 0.01
ACGTcount: A:0.33, C:0.06, G:0.16, T:0.44
Consensus pattern (31 bp):
AATTATCGAACTTGAAGTTTTTAAGTATTTG
Found at i:786209 original size:21 final size:21
Alignment explanation
Indices: 786183--786239 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
786173 TGGAGCGTGG
*
786183 GGGAATCGGTACCCTCTCATA
1 GGGAATCGGTTCCCTCTCATA
* *
786204 GGGAATCGATTTCCTCTCATA
1 GGGAATCGGTTCCCTCTCATA
786225 GGGAATCGGTTCCCT
1 GGGAATCGGTTCCCT
786240 AAGTGTAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.21, C:0.26, G:0.25, T:0.28
Consensus pattern (21 bp):
GGGAATCGGTTCCCTCTCATA
Found at i:786429 original size:15 final size:15
Alignment explanation
Indices: 786404--786459 Score: 67
Period size: 15 Copynumber: 3.6 Consensus size: 15
786394 ATCTGGAATA
*
786404 TTAAAATCGGTTTTT
1 TTAAAACCGGTTTTT
*
786419 TTATAACCGGTTTTT
1 TTAAAACCGGTTTTT
*
786434 TAAAAAAACCGGTTTTT
1 T--TAAAACCGGTTTTT
786451 TTAAAACCG
1 TTAAAACCG
786460 AAACCGGTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
15 21 0.62
17 13 0.38
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.43
Consensus pattern (15 bp):
TTAAAACCGGTTTTT
Found at i:786468 original size:21 final size:18
Alignment explanation
Indices: 786423--786456 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
786413 GTTTTTTTAT
786423 AACCGG-TTTTTTAAAAA
1 AACCGGTTTTTTTAAAAA
786440 AACCGGTTTTTTTAAAA
1 AACCGGTTTTTTTAAAA
786457 CCGAAACCGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (18 bp):
AACCGGTTTTTTTAAAAA
Found at i:792127 original size:81 final size:81
Alignment explanation
Indices: 791992--792152 Score: 322
Period size: 81 Copynumber: 2.0 Consensus size: 81
791982 TGAACGTTTA
791992 TAAATAACTTAAATTGAGAAACCATACATCATAGATCCACATTTTACACCTGATAATGGCAGCGT
1 TAAATAACTTAAATTGAGAAACCATACATCATAGATCCACATTTTACACCTGATAATGGCAGCGT
792057 AGTAACAATTTTTTTT
66 AGTAACAATTTTTTTT
792073 TAAATAACTTAAATTGAGAAACCATACATCATAGATCCACATTTTACACCTGATAATGGCAGCGT
1 TAAATAACTTAAATTGAGAAACCATACATCATAGATCCACATTTTACACCTGATAATGGCAGCGT
792138 AGTAACAATTTTTTT
66 AGTAACAATTTTTTT
792153 GCATAACAAA
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (81 bp):
TAAATAACTTAAATTGAGAAACCATACATCATAGATCCACATTTTACACCTGATAATGGCAGCGT
AGTAACAATTTTTTTT
Found at i:792986 original size:16 final size:16
Alignment explanation
Indices: 792967--793000 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
792957 CAATATACGA
792967 ATAAAAATATATTTAT
1 ATAAAAATATATTTAT
**
792983 ATAAATGTATATTTAT
1 ATAAAAATATATTTAT
792999 AT
1 AT
793001 TTAGATGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
ATAAAAATATATTTAT
Found at i:793072 original size:16 final size:18
Alignment explanation
Indices: 793040--793072 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
793030 TATTAATGTA
793040 TGAATCATTTATATTTTT
1 TGAATCATTTATATTTTT
793058 TGAAT-ATTT-TATTTT
1 TGAATCATTTATATTTT
793073 AATAAGAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 4 0.27
18 5 0.33
ACGTcount: A:0.27, C:0.03, G:0.06, T:0.64
Consensus pattern (18 bp):
TGAATCATTTATATTTTT
Found at i:793735 original size:128 final size:129
Alignment explanation
Indices: 793533--793778 Score: 395
Period size: 128 Copynumber: 1.9 Consensus size: 129
793523 AATTTTCTTC
*
793533 TAATTAGGTGGTGACATGTGTCACCAATAACATATATCATGATAATGTGTTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACA-ATATCATGATAATGTGCTAACACATGTCAGAT
** *
793598 CCTGGTTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
65 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAA
* * * *
793663 TAATTAGGTGGTGACATGTGTCACCAATGAC-GTGTCATGATCATGTGCTAACACATGTCAGATC
1 TAATTAGGTGGTGACATGTGTCACCAATAACAATATCATGATAATGTGCTAACACATGTCAGATC
*
793727 CTAATTAAATGATTAATTTATTAAATTCTATTTAATTTATGACCAAATTGAT
66 CTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
793779 TATATAAATA
Statistics
Matches: 107, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
128 77 0.72
130 30 0.28
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (129 bp):
TAATTAGGTGGTGACATGTGTCACCAATAACAATATCATGATAATGTGCTAACACATGTCAGATC
CTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAA
Found at i:794235 original size:35 final size:35
Alignment explanation
Indices: 794174--794249 Score: 107
Period size: 35 Copynumber: 2.2 Consensus size: 35
794164 AATTGAATTT
* * *
794174 AATTGAATTATTTTGGAATTTAGGGTTTAGAATAA
1 AATTGAATTACTTTAGAAATTAGGGTTTAGAATAA
* *
794209 AATTGAATTACTTTAGAAATTGGGGTTTAGAATGA
1 AATTGAATTACTTTAGAAATTAGGGTTTAGAATAA
794244 AATTGA
1 AATTGA
794250 GGACTGTTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.38, C:0.01, G:0.21, T:0.39
Consensus pattern (35 bp):
AATTGAATTACTTTAGAAATTAGGGTTTAGAATAA
Found at i:795271 original size:221 final size:209
Alignment explanation
Indices: 794856--795404 Score: 707
Period size: 221 Copynumber: 2.6 Consensus size: 209
794846 CTTATTCATA
* * * *
794856 TATTGAATAAAAATATTTTTTTATTATTTCGGGTTGGGTC--G-GG-TTTCTAATTCATATATTC
1 TATTAAATAAAAATAATTTTTTATTATTTTGGGTCGGGTCGGGTGGATTTCTAATTCATATATTC
* * * *
794917 GGGTCGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGATCGGTTTTTTTAAGTGTGATATTCGG
66 GGGTCGGGTCGGATGAAACTTTATTTTGTTCGGGTCGGGTCGGTGTTTTTAAGTGTGATATTCGG
*
794982 GTCGGGTTTAGGGTGAAAAAAATCGGACCGACCTGAAAATATATATAATTCAGGTCGGGTCAGAT
131 GTCGGGTTTAGGGTGAAAAAAATCGGACCGACCTGAAAATATATATAATTCAGGTCAGGTCAGAT
*
795047 TAAGTCATTGTTTT
196 TAAGTCACTGTTTT
795061 TATTAAATAAAAATAATTTTTTATTATTTTGGGTCGGGTCGGGTTGGATTTCTAATTCATATATT
1 TATTAAATAAAAATAATTTTTTATTATTTTGGGTCGGGTCGGG-TGGATTTCTAATTCATATATT
795126 CGGGTCGGGTCGGATGAAACTTTATTTTGTTCGGGTCGGGTCGGGTGTTTTTAAGTGTGATATTT
65 CGGGTCGGGTCGGATGAAACTTTATTTTGTTCGGGTCGGGTC-GGTGTTTTTAAGTGTGATA--T
795191 GGGTCGGGTCGGGTTCAGGTTTAGGG-GAAAAAAA-CTGGACCGAACC-GAAAATATATATAATT
127 ---TCGGGTC--G----GGTTTAGGGTGAAAAAAATC-GGACCG-ACCTGAAAATATATATAATT
* *
795253 CGGGTCAGGTCGGATTAAGTCACTGTTTT
181 CAGGTCAGGTCAGATTAAGTCACTGTTTT
*
795282 TATTAAATAAAAATAATTTTTTATTATTTCGGGTCGGGTC----GGATTTCTAATTCATATATTC
1 TATTAAATAAAAATAATTTTTTATTATTTTGGGTCGGGTCGGGTGGATTTCTAATTCATATATTC
* * *
795343 GGGTCGGATCAGATGAAACTTTATTTTGTTCGGGTC--G--GGT-TTTTTAACTGTGATATTCGG
66 GGGTCGGGTCGGATGAAACTTTATTTTGTTCGGGTCGGGTCGGTGTTTTTAAGTGTGATATTCGG
795403 GT
131 GT
795405 TGAGTCGGGT
Statistics
Matches: 309, Mismatches: 16, Indels: 38
0.85 0.04 0.10
Matches are distributed among these distances:
205 42 0.14
207 1 0.00
208 1 0.00
209 2 0.01
210 70 0.23
211 21 0.07
213 1 0.00
214 1 0.00
216 62 0.20
218 1 0.00
220 1 0.00
221 94 0.30
222 12 0.04
ACGTcount: A:0.24, C:0.11, G:0.26, T:0.39
Consensus pattern (209 bp):
TATTAAATAAAAATAATTTTTTATTATTTTGGGTCGGGTCGGGTGGATTTCTAATTCATATATTC
GGGTCGGGTCGGATGAAACTTTATTTTGTTCGGGTCGGGTCGGTGTTTTTAAGTGTGATATTCGG
GTCGGGTTTAGGGTGAAAAAAATCGGACCGACCTGAAAATATATATAATTCAGGTCAGGTCAGAT
TAAGTCACTGTTTT
Found at i:795360 original size:216 final size:205
Alignment explanation
Indices: 794856--795404 Score: 727
Period size: 210 Copynumber: 2.6 Consensus size: 205
794846 CTTATTCATA
* * * *
794856 TATTGAATAAAAATATTTTTTTATTATTTCGGGTTGGGTCGGGTTTCTAATTCATATATTCGGGT
1 TATTAAATAAAAATAATTTTTTATTATTTCGGGTCGGGTCGGATTTCTAATTCATATATTCGGGT
* * * *
794921 CGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGATCGGTTTTTTTAAGTGTGATATTCGGGTCG
66 CGGGTCGGATGAAACTTTATTTTGTTCGGGTCGGGTCGGTGTTTTTAAGTGTGATATTCGGGTCG
*
794986 GGTTTAGGGTGAAAAAAATCGGACCGACCTGAAAATATATATAATTCAGGTCGGGTCAGATTAAG
131 GGTTTAGGGTGAAAAAAATCGGACCGACCTGAAAATATATATAATTCAGGTCAGGTCAGATTAAG
*
795051 TCATTGTTTT
196 TCACTGTTTT
*
795061 TATTAAATAAAAATAATTTTTTATTATTTTGGGTCGGGTCGGGTTGGATTTCTAATTCATATATT
1 TATTAAATAAAAATAATTTTTTATTA--TT---TCGGGTCGGGTCGGATTTCTAATTCATATATT
795126 CGGGTCGGGTCGGATGAAACTTTATTTTGTTCGGGTCGGGTCGGGTGTTTTTAAGTGTGATATTT
61 CGGGTCGGGTCGGATGAAACTTTATTTTGTTCGGGTCGGGTC-GGTGTTTTTAAGTGTGATA--T
795191 GGGTCGGGTCGGGTTCAGGTTTAGGG-GAAAAAAA-CTGGACCGAACC-GAAAATATATATAATT
123 ---TCGGGTC--G----GGTTTAGGGTGAAAAAAATC-GGACCG-ACCTGAAAATATATATAATT
* *
795253 CGGGTCAGGTCGGATTAAGTCACTGTTTT
177 CAGGTCAGGTCAGATTAAGTCACTGTTTT
795282 TATTAAATAAAAATAATTTTTTATTATTTCGGGTCGGGTCGGATTTCTAATTCATATATTCGGGT
1 TATTAAATAAAAATAATTTTTTATTATTTCGGGTCGGGTCGGATTTCTAATTCATATATTCGGGT
* * *
795347 CGGATCAGATGAAACTTTATTTTGTTCGGGTC--G--GGT-TTTTTAACTGTGATATTCGGGT
66 CGGGTCGGATGAAACTTTATTTTGTTCGGGTCGGGTCGGTGTTTTTAAGTGTGATATTCGGGT
795405 TGAGTCGGGT
Statistics
Matches: 308, Mismatches: 17, Indels: 38
0.85 0.05 0.10
Matches are distributed among these distances:
205 30 0.10
207 2 0.01
208 1 0.00
210 82 0.27
211 21 0.07
213 1 0.00
214 1 0.00
216 73 0.24
218 1 0.00
219 2 0.01
220 1 0.00
221 81 0.26
222 12 0.04
ACGTcount: A:0.24, C:0.11, G:0.26, T:0.39
Consensus pattern (205 bp):
TATTAAATAAAAATAATTTTTTATTATTTCGGGTCGGGTCGGATTTCTAATTCATATATTCGGGT
CGGGTCGGATGAAACTTTATTTTGTTCGGGTCGGGTCGGTGTTTTTAAGTGTGATATTCGGGTCG
GGTTTAGGGTGAAAAAAATCGGACCGACCTGAAAATATATATAATTCAGGTCAGGTCAGATTAAG
TCACTGTTTT
Found at i:795451 original size:38 final size:37
Alignment explanation
Indices: 795372--795452 Score: 119
Period size: 38 Copynumber: 2.2 Consensus size: 37
795362 TTTATTTTGT
*
795372 TCGGGTCGGGTTTTTTAACTGTGATATTCGGGTTGAG
1 TCGGGTCGGGTTTTTTAACTGTGATATTCGGGTGGAG
*
795409 TCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGTCGGA-
1 TCGGGTCGGG-TTTTTTAACTGTGATATTCGGGT-GGAG
795447 TCGGGT
1 TCGGGT
795453 TTGGGTTTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
37 10 0.25
38 28 0.70
39 2 0.05
ACGTcount: A:0.12, C:0.11, G:0.37, T:0.40
Consensus pattern (37 bp):
TCGGGTCGGGTTTTTTAACTGTGATATTCGGGTGGAG
Found at i:795652 original size:37 final size:38
Alignment explanation
Indices: 795601--795680 Score: 110
Period size: 38 Copynumber: 2.1 Consensus size: 38
795591 TTGTTCGGGT
* *
795601 CGGGTCGG-GTTTTTTAAGTGTAATATTCGGGTC-GAG
1 CGGGTCGGATTTTTTTAAGTGTAATATTCGAGTCGGAG
*
795637 CTGGGTCGGATTTTTTTAAGTGTGATATTCGAGTCGGAG
1 C-GGGTCGGATTTTTTTAAGTGTAATATTCGAGTCGGAG
795676 CGGGT
1 CGGGT
795681 TTGGGTTTAG
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
36 1 0.03
37 7 0.18
38 26 0.68
39 4 0.11
ACGTcount: A:0.16, C:0.11, G:0.36, T:0.36
Consensus pattern (38 bp):
CGGGTCGGATTTTTTTAAGTGTAATATTCGAGTCGGAG
Found at i:795797 original size:14 final size:12
Alignment explanation
Indices: 795771--795795 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
795761 AATATCCCTC
795771 TATATATAATTT
1 TATATATAATTT
795783 TATATATAATTT
1 TATATATAATTT
795795 T
1 T
795796 TTTCAATTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TATATATAATTT
Found at i:796255 original size:44 final size:44
Alignment explanation
Indices: 796201--796284 Score: 150
Period size: 44 Copynumber: 1.9 Consensus size: 44
796191 ATCTGACATG
*
796201 TCTGCGAACCAAACAGAATATGGAATTGAATTCCAATTCCATTT
1 TCTGCCAACCAAACAGAATATGGAATTGAATTCCAATTCCATTT
*
796245 TCTGCCAACCAAACAGAATATGGAATTGGATTCCAATTCC
1 TCTGCCAACCAAACAGAATATGGAATTGAATTCCAATTCC
796285 TACAGATTCC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (44 bp):
TCTGCCAACCAAACAGAATATGGAATTGAATTCCAATTCCATTT
Found at i:796294 original size:16 final size:18
Alignment explanation
Indices: 796273--796318 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
796263 TATGGAATTG
796273 GATTCCAATTCC-T-ACA
1 GATTCCAATTCCTTCACA
796289 GATTCCAATTCCTTCACA
1 GATTCCAATTCCTTCACA
*
796307 GATTTCAATTCC
1 GATTCCAATTCC
796319 CTCATAAACA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 12 0.44
17 1 0.04
18 14 0.52
ACGTcount: A:0.28, C:0.30, G:0.07, T:0.35
Consensus pattern (18 bp):
GATTCCAATTCCTTCACA
Found at i:796608 original size:21 final size:21
Alignment explanation
Indices: 796582--796621 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
796572 GCAACACAGG
796582 TTCCAAAATCGCAACGCAATT
1 TTCCAAAATCGCAACGCAATT
*
796603 TTCCAAATTCGCAACGCAA
1 TTCCAAAATCGCAACGCAA
796622 ATAGGTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.30, G:0.10, T:0.23
Consensus pattern (21 bp):
TTCCAAAATCGCAACGCAATT
Found at i:796674 original size:20 final size:21
Alignment explanation
Indices: 796651--796698 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
796641 AATTTGTAAA
*
796651 TCGCAACACATAA-GTCAAAT
1 TCGCAACACAGAATGTCAAAT
* *
796671 TCGCAACACGGAATTTCAAAT
1 TCGCAACACAGAATGTCAAAT
796692 TCGCAAC
1 TCGCAAC
796699 GCGAATTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.40, C:0.27, G:0.12, T:0.21
Consensus pattern (21 bp):
TCGCAACACAGAATGTCAAAT
Found at i:796691 original size:21 final size:20
Alignment explanation
Indices: 796665--796706 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
796655 AACACATAAG
796665 TCAAATTCGCAACACGGAATT
1 TCAAATTCGCAACAC-GAATT
*
796686 TCAAATTCGCAACGCGAATT
1 TCAAATTCGCAACACGAATT
796706 T
1 T
796707 ATTTTTTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (20 bp):
TCAAATTCGCAACACGAATT
Found at i:796706 original size:20 final size:20
Alignment explanation
Indices: 796545--796706 Score: 75
Period size: 20 Copynumber: 8.0 Consensus size: 20
796535 AAATGACCAA
* *
796545 CAAATTCGCAACGCGAACTC
1 CAAATTCGCAACGCGAATTT
* * * * *
796565 CTATTTCGCAACAC-AGGTTC
1 CAAATTCGCAACGCGA-ATTT
*
796585 CAAAATCGCAACGC-AATTTT
1 CAAATTCGCAACGCGAA-TTT
* *
796605 CCAAATTCGCAACGCAAATAGGT
1 -CAAATTCGCAACGCGAAT--TT
796628 -AAA-TCGCAACGCGAATTT
1 CAAATTCGCAACGCGAATTT
* * **
796646 GTAAA-TCGCAACAC-ATAAGT
1 -CAAATTCGCAACGCGA-ATTT
*
796666 CAAATTCGCAACACGGAATTT
1 CAAATTCGCAACGC-GAATTT
796687 CAAATTCGCAACGCGAATTT
1 CAAATTCGCAACGCGAATTT
796707 ATTTTTTATA
Statistics
Matches: 108, Mismatches: 22, Indels: 24
0.70 0.14 0.16
Matches are distributed among these distances:
18 1 0.01
19 5 0.05
20 66 0.61
21 32 0.30
22 3 0.03
23 1 0.01
ACGTcount: A:0.37, C:0.26, G:0.15, T:0.22
Consensus pattern (20 bp):
CAAATTCGCAACGCGAATTT
Found at i:796778 original size:20 final size:20
Alignment explanation
Indices: 796755--796812 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
796745 TTCTAAATCG
796755 CAACACGAATTTTGATTTCC
1 CAACACGAATTTTGATTTCC
* * *
796775 CAACTCG-ATTTTCGAATTCG
1 CAACACGAATTTT-GATTTCC
*
796795 CAACACGAATTTTAATTT
1 CAACACGAATTTTGATTT
796813 TGCAACAGCT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
19 5 0.17
20 20 0.67
21 5 0.17
ACGTcount: A:0.31, C:0.22, G:0.10, T:0.36
Consensus pattern (20 bp):
CAACACGAATTTTGATTTCC
Found at i:796817 original size:20 final size:19
Alignment explanation
Indices: 796730--796838 Score: 62
Period size: 20 Copynumber: 5.6 Consensus size: 19
796720 CAAGTTTCCT
*
796730 TTTCGCAACAAGATTTTCTAA
1 TTTCGCAACACGA-TTT-TAA
* *
796751 -ATCGCAACACGAATTTTGA
1 TTTCGCAACACG-ATTTTAA
* *
796770 TTTCCCAACTCGATTTTCGAA
1 TTTCGCAACACGATTTT--AA
796791 -TTCGCAACACGAATTTTAA
1 TTTCGCAACACG-ATTTTAA
* * *
796810 TTTTGCAACA-GCTTTTAT
1 TTTCGCAACACGATTTTAA
*
796828 TTTTGCAACAC
1 TTTCGCAACAC
796839 AAATGTTTTG
Statistics
Matches: 69, Mismatches: 12, Indels: 16
0.71 0.12 0.16
Matches are distributed among these distances:
18 15 0.22
19 10 0.14
20 37 0.54
21 7 0.10
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.37
Consensus pattern (19 bp):
TTTCGCAACACGATTTTAA
Found at i:797773 original size:24 final size:24
Alignment explanation
Indices: 797746--797799 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
797736 GTATTCGAAA
*
797746 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTAGTCAATACCCGGAC
* *
797770 TTTGATCTTAGTCAATACTCGGAT
1 TTTGATCTTAGTCAATACCCGGAC
797794 TTTGAT
1 TTTGAT
797800 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATCTTAGTCAATACCCGGAC
Found at i:797982 original size:3 final size:3
Alignment explanation
Indices: 797974--797998 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
797964 ATATAACCCT
797974 GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA G
797999 TCCCCGGAGA
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:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:801964 original size:21 final size:21
Alignment explanation
Indices: 801938--802009 Score: 58
Period size: 21 Copynumber: 3.4 Consensus size: 21
801928 TGAATCGGGA
* *
801938 TCTTGAATGGTGGGAGGGGCC
1 TCTTGAATGGTGGAAGAGGCC
*
801959 TCTTGAA-GGAT-GATAGTGGCC
1 TCTTGAATGG-TGGA-AGAGGCC
* * *
801980 TCTTGAACGATAGAAGAGGCC
1 TCTTGAATGGTGGAAGAGGCC
802001 TCTTGAATG
1 TCTTGAATG
802010 ATGACAGGTA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
20 3 0.07
21 36 0.86
22 3 0.07
ACGTcount: A:0.24, C:0.15, G:0.35, T:0.26
Consensus pattern (21 bp):
TCTTGAATGGTGGAAGAGGCC
Found at i:813372 original size:29 final size:30
Alignment explanation
Indices: 813329--813389 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 30
813319 AATTTTGACC
**
813329 AGTGACTAAAATGTAAGTTTTG-AAAGTTT
1 AGTGACTAAAATGTAAACTTTGAAAAGTTT
*
813358 AGTGACTAAAGTGTAAACTTTGAAAAGTTT
1 AGTGACTAAAATGTAAACTTTGAAAAGTTT
813388 AG
1 AG
813390 GACCCTAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 19 0.68
30 9 0.32
ACGTcount: A:0.39, C:0.05, G:0.21, T:0.34
Consensus pattern (30 bp):
AGTGACTAAAATGTAAACTTTGAAAAGTTT
Found at i:823685 original size:13 final size:13
Alignment explanation
Indices: 823651--823677 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
823641 TACTTTGGGC
823651 TATAAAAATTAAA
1 TATAAAAATTAAA
823664 TATAAAAATTAAA
1 TATAAAAATTAAA
823677 T
1 T
823678 TCAAAAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
TATAAAAATTAAA
Found at i:827403 original size:31 final size:28
Alignment explanation
Indices: 827367--827425 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
827357 ATTTAAAAGT
827367 ATAGTGATATAATTGAATATAAAATTAAAAC
1 ATAGTGATATAATTG---ATAAAATTAAAAC
* *
827398 ATAGTGTTGTAATTGATAAAATTAAAAC
1 ATAGTGATATAATTGATAAAATTAAAAC
827426 TTTAATGATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 13 0.50
31 13 0.50
ACGTcount: A:0.51, C:0.03, G:0.12, T:0.34
Consensus pattern (28 bp):
ATAGTGATATAATTGATAAAATTAAAAC
Found at i:827878 original size:21 final size:21
Alignment explanation
Indices: 827852--827925 Score: 103
Period size: 21 Copynumber: 3.5 Consensus size: 21
827842 ATTCTGACCA
827852 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
*
827873 TCGCATTGCAATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * *
827894 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
*
827915 TCGCAATGCGA
1 TCGCATTGCGA
827926 ATACGTAAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.23, C:0.27, G:0.16, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:827940 original size:20 final size:20
Alignment explanation
Indices: 827915--828048 Score: 214
Period size: 20 Copynumber: 6.7 Consensus size: 20
827905 TTTTCCTAAT
827915 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* ** *
827935 TCGCAACGCGAATTTGGAAAA
1 TCGCAATGCGAA-TACGTAAA
827956 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
827976 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
827996 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
828016 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
828036 TCGCAACGCGAAT
1 TCGCAATGCGAAT
828049 CTGACTATCG
Statistics
Matches: 104, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
20 88 0.85
21 16 0.15
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.19
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:828058 original size:20 final size:20
Alignment explanation
Indices: 828035--828081 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
828025 GAATACGTAA
*
828035 ATCGCAACGCGAATCTGACT
1 ATCGCAACGAGAATCTGACT
*
828055 ATCGCAACGAGATTCTGACT
1 ATCGCAACGAGAATCTGACT
828075 ATCGCAA
1 ATCGCAA
828082 TACTGAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (20 bp):
ATCGCAACGAGAATCTGACT
Found at i:828973 original size:24 final size:24
Alignment explanation
Indices: 828916--828975 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
828906 TAGTCAGTAT
828916 TCGAAATTTGATCTTGGTCAATAC
1 TCGAAATTTGATCTTGGTCAATAC
* * *
828940 CCGGACTTTGATCTTGGTCAATAC
1 TCGAAATTTGATCTTGGTCAATAC
*
828964 TCGAATTTTGAT
1 TCGAAATTTGAT
828976 GATTTTTCAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.38
Consensus pattern (24 bp):
TCGAAATTTGATCTTGGTCAATAC
Found at i:831434 original size:20 final size:21
Alignment explanation
Indices: 831409--831473 Score: 100
Period size: 20 Copynumber: 3.2 Consensus size: 21
831399 CAATGCGGAA
831409 ATCGCAACGC-GAATATGACT
1 ATCGCAACGCGGAATATGACT
831429 ATCGCAACGCGGAAT-TGACT
1 ATCGCAACGCGGAATATGACT
831449 ATCGCAACGCGGAA-ATGACT
1 ATCGCAACGCGGAATATGACT
*
831469 TTCGC
1 ATCGC
831474 GTTGCGATTT
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
20 38 0.90
21 4 0.10
ACGTcount: A:0.31, C:0.26, G:0.23, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGGAATATGACT
Found at i:831530 original size:33 final size:34
Alignment explanation
Indices: 831473--831548 Score: 136
Period size: 33 Copynumber: 2.3 Consensus size: 34
831463 ATGACTTTCG
831473 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
*
831507 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
831540 CGTTGCGAT
1 CGTTGCGAT
831549 AGTCTATTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
33 27 0.66
34 14 0.34
ACGTcount: A:0.13, C:0.24, G:0.20, T:0.43
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
Found at i:831674 original size:14 final size:14
Alignment explanation
Indices: 831655--831690 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
831645 ATCAATTAAG
831655 CAAATCAACATTTA
1 CAAATCAACATTTA
* *
831669 CAAATCATCTTTTA
1 CAAATCAACATTTA
831683 CAAATCAA
1 CAAATCAA
831691 TTAAACAATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.47, C:0.22, G:0.00, T:0.31
Consensus pattern (14 bp):
CAAATCAACATTTA
Found at i:833684 original size:20 final size:20
Alignment explanation
Indices: 833661--833726 Score: 114
Period size: 20 Copynumber: 3.3 Consensus size: 20
833651 ACTTAAAATT
833661 GCAACGCGAAAATGACTATC
1 GCAACGCGAAAATGACTATC
833681 GCAACGCGAAAATGACTATC
1 GCAACGCGAAAATGACTATC
* *
833701 GCAACGCGACAATGACTATT
1 GCAACGCGAAAATGACTATC
833721 GCAACG
1 GCAACG
833727 AGAGAATCGC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.38, C:0.26, G:0.21, T:0.15
Consensus pattern (20 bp):
GCAACGCGAAAATGACTATC
Found at i:833755 original size:33 final size:33
Alignment explanation
Indices: 833698--833778 Score: 99
Period size: 33 Copynumber: 2.4 Consensus size: 33
833688 GAAAATGACT
** * * *
833698 ATCGCAACGCGACAATGACTATTGCAACGAGAGA
1 ATCGCAACGCGA-AATGAAAATTGCAACAACAAA
*
833732 ATCGCAATGCGAAATGAAAATTGCAACAACAAA
1 ATCGCAACGCGAAATGAAAATTGCAACAACAAA
833765 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
833779 ATGACTATCG
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
33 29 0.73
34 11 0.28
ACGTcount: A:0.44, C:0.22, G:0.20, T:0.14
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATTGCAACAACAAA
Found at i:833790 original size:20 final size:20
Alignment explanation
Indices: 833765--833813 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
833755 CAACAACAAA
833765 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* **
833785 ATCGCAATGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
833805 ATCGCAACG
1 ATCGCAACG
833814 AGAGAATCGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:833863 original size:33 final size:33
Alignment explanation
Indices: 833834--833991 Score: 147
Period size: 34 Copynumber: 4.5 Consensus size: 33
833824 AATGCGATTT
833834 TCATTTCGCATTGCGATTCTTTTGTTGCGATAG
1 TCATTTCGCATTGCGATTCTTTTGTTGCGATAG
* * * *
833867 TCAAATTCGCATTGTGATAGTCATTTTCGCATTTCAATAG
1 TC-ATTTCGCATTGCGAT--TC-TTTT-G--TTGCGATAG
**
833907 TCATTTTCGCATTGCGATT-TTGTTGTTGCGATTT
1 TCA-TTTCGCATTGCGATTCTT-TTGTTGCGATAG
* *
833941 TCATTTCGCATTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCATTGCGATTCTTTTGTTGCGATAG
833974 TCATTTTCGCATTGCGAT
1 TCA-TTTCGCATTGCGAT
833992 AGTCATTTTC
Statistics
Matches: 100, Mismatches: 14, Indels: 21
0.74 0.10 0.16
Matches are distributed among these distances:
33 29 0.29
34 36 0.36
36 5 0.05
37 6 0.06
38 2 0.02
39 1 0.01
40 21 0.21
ACGTcount: A:0.18, C:0.19, G:0.19, T:0.44
Consensus pattern (33 bp):
TCATTTCGCATTGCGATTCTTTTGTTGCGATAG
Found at i:833887 original size:20 final size:20
Alignment explanation
Indices: 833862--833899 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
833852 CTTTTGTTGC
833862 GATAGTCAAATTCGCATTGT
1 GATAGTCAAATTCGCATTGT
**
833882 GATAGTCATTTTCGCATT
1 GATAGTCAAATTCGCATT
833900 TCAATAGTCA
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:0.26, C:0.16, G:0.18, T:0.39
Consensus pattern (20 bp):
GATAGTCAAATTCGCATTGT
Found at i:833897 original size:107 final size:108
Alignment explanation
Indices: 833802--834014 Score: 243
Period size: 107 Copynumber: 2.0 Consensus size: 108
833792 TGCGAATTTG
* *
833802 ACTATCGCAACGAGAGAATCG-CAATGCGATTTTCATTTCGCATTGCGATTCTTTTGTTGCGATA
1 ACTATCGCAACGAGA-AATCGTCAATGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATA
* *
833866 GTCAAATTCGCATTGTGATAGTCATTTTCGCATTTC-AATAGTC
65 GTCAAATTCGCATTGCGATAGTCATTTTCGCATTGCGAATAGTC
* * ** * ** * ***
833909 ATTTTCGCATTGCGATTTTGTTGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATAG
1 ACTATCGCAACGAGAAATCGTCAATGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATAG
**
833974 TCATTTTCGCATTGCGATAGTCATTTTCGCATTGCG-ATAGT
66 TCAAATTCGCATTGCGATAGTCATTTTCGCATTGCGAATAGT
834015 AAGCTATTCT
Statistics
Matches: 87, Mismatches: 17, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
106 2 0.02
107 85 0.98
ACGTcount: A:0.21, C:0.19, G:0.20, T:0.40
Consensus pattern (108 bp):
ACTATCGCAACGAGAAATCGTCAATGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATAG
TCAAATTCGCATTGCGATAGTCATTTTCGCATTGCGAATAGTC
Found at i:833990 original size:20 final size:20
Alignment explanation
Indices: 833965--834014 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
833955 GATTCTCTCG
833965 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
833985 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
834005 TTGCGATAGT
1 TTGCGATAGT
834015 AAGCTATTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.40
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:835907 original size:20 final size:20
Alignment explanation
Indices: 835884--835938 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
835874 CTGAAACTTT
*
835884 AAATCGCAATACGAAAATGA
1 AAATCGCAACACGAAAATGA
835904 AAATCGCAACACGAAAATGA
1 AAATCGCAACACGAAAATGA
** *
835924 CGATCGCAACGCGAA
1 AAATCGCAACACGAA
835939 TTTGACTATC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.49, C:0.22, G:0.18, T:0.11
Consensus pattern (20 bp):
AAATCGCAACACGAAAATGA
Found at i:835944 original size:20 final size:20
Alignment explanation
Indices: 835895--835955 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
835885 AATCGCAATA
** *
835895 CGAAAATGAAAATCGCAACA
1 CGAAAATGACGATCGCAACG
835915 CGAAAATGACGATCGCAACG
1 CGAAAATGACGATCGCAACG
** *
835935 CGAATTTGACTATCGCAACG
1 CGAAAATGACGATCGCAACG
835955 C
1 C
835956 AAGAATCGCA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.41, C:0.25, G:0.20, T:0.15
Consensus pattern (20 bp):
CGAAAATGACGATCGCAACG
Found at i:836367 original size:22 final size:22
Alignment explanation
Indices: 836332--836388 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
836322 ATTATTTCGC
*
836332 CGGAGATGGAGACTGATATCGT
1 CGGAGATGGGGACTGATATCGT
* *
836354 CGGTGATGGGGACTGATTTCGT
1 CGGAGATGGGGACTGATATCGT
836376 CGGAGATGGGGAC
1 CGGAGATGGGGAC
836389 GGATGTCACC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.21, C:0.14, G:0.42, T:0.23
Consensus pattern (22 bp):
CGGAGATGGGGACTGATATCGT
Found at i:836609 original size:20 final size:20
Alignment explanation
Indices: 836586--836719 Score: 205
Period size: 20 Copynumber: 6.7 Consensus size: 20
836576 CAATAGTCAG
836586 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
*
836606 ATTCGCATTGCGATTTATGT
1 ATTCGCATTGCGATTTACGT
*
836626 ATTCGCATTGCGATTTATGT
1 ATTCGCATTGCGATTTACGT
836646 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
**
836666 ATTCGCATTGCGATTTATCAA
1 ATTCGCATTGCGATTTA-CGT
* *
836687 ATTTGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
836707 ATTCGCATTGCGA
1 ATTCGCATTGCGA
836720 ATTAGGAAAA
Statistics
Matches: 103, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
20 87 0.84
21 16 0.16
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.41
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:836761 original size:21 final size:21
Alignment explanation
Indices: 836709--836761 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
836699 ATTTACGTAT
*
836709 TCGCATTGCGAATTAGGAAAA
1 TCGCAATGCGAATTAGGAAAA
* * *
836730 TCGCAACGCGAATTTGGGAAA
1 TCGCAATGCGAATTAGGAAAA
*
836751 TCGTAATGCGA
1 TCGCAATGCGA
836762 TAGTCAGAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAATTAGGAAAA
Found at i:842690 original size:18 final size:19
Alignment explanation
Indices: 842658--842703 Score: 76
Period size: 18 Copynumber: 2.4 Consensus size: 19
842648 TTTTTTTTTT
842658 CAAAAAAACAAAAAAAAAGC
1 CAAAAAAAC-AAAAAAAAGC
842678 CAAAAAAAC-AAAAAAAGC
1 CAAAAAAACAAAAAAAAGC
842696 CAAAAAAA
1 CAAAAAAA
842704 TCCAAAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 17 0.65
20 9 0.35
ACGTcount: A:0.80, C:0.15, G:0.04, T:0.00
Consensus pattern (19 bp):
CAAAAAAACAAAAAAAAGC
Found at i:842708 original size:10 final size:10
Alignment explanation
Indices: 842669--842710 Score: 61
Period size: 10 Copynumber: 4.4 Consensus size: 10
842659 AAAAAAACAA
842669 AAAAAAAGCC
1 AAAAAAAGCC
842679 AAAAAAA--C
1 AAAAAAAGCC
842687 AAAAAAAGCC
1 AAAAAAAGCC
*
842697 AAAAAAATCC
1 AAAAAAAGCC
842707 AAAA
1 AAAA
842711 TTTCAAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
8 8 0.28
10 21 0.72
ACGTcount: A:0.76, C:0.17, G:0.05, T:0.02
Consensus pattern (10 bp):
AAAAAAAGCC
Found at i:842717 original size:28 final size:28
Alignment explanation
Indices: 842655--842721 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
842645 CTATTTTTTT
842655 TTTCAAAAAAACAAAAAAAAAGCCAAAA
1 TTTCAAAAAAACAAAAAAAAAGCCAAAA
*** * *
842683 AAACAAAAAAAGC-CAAAAAAATCCAAAA
1 TTTCAAAAAAA-CAAAAAAAAAGCCAAAA
842711 TTTCAAAAAAA
1 TTTCAAAAAAA
842722 TTGCAAACGA
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
28 29 0.97
29 1 0.03
ACGTcount: A:0.72, C:0.15, G:0.03, T:0.10
Consensus pattern (28 bp):
TTTCAAAAAAACAAAAAAAAAGCCAAAA
Found at i:851946 original size:21 final size:21
Alignment explanation
Indices: 851909--851956 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
851899 TATTTAGTCT
* *
851909 TTTTATTTTTACTATCA-ATC
1 TTTTAATTTTACAATCATATC
851929 TTTTAATTTTATCAATCATATC
1 TTTTAATTTTA-CAATCATATC
*
851951 ATTTAA
1 TTTTAA
851957 CTATTTAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 10 0.43
21 5 0.22
22 8 0.35
ACGTcount: A:0.31, C:0.12, G:0.00, T:0.56
Consensus pattern (21 bp):
TTTTAATTTTACAATCATATC
Found at i:852422 original size:2 final size:2
Alignment explanation
Indices: 852417--852452 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
852407 CGTGTGTGTC
852417 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
852453 ATTATTAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:854932 original size:17 final size:18
Alignment explanation
Indices: 854906--854954 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
854896 TTAACATATT
*
854906 TTAAAATAAAATAAAA-A
1 TTAAAGTAAAATAAAAGA
854923 TTAAAGTAAAAATAAAAGA
1 TTAAAGT-AAAATAAAAGA
*
854942 TGAAAG-AAAATAA
1 TTAAAGTAAAATAA
854955 CTTTTATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 13 0.46
18 9 0.32
19 6 0.21
ACGTcount: A:0.71, C:0.00, G:0.08, T:0.20
Consensus pattern (18 bp):
TTAAAGTAAAATAAAAGA
Found at i:854951 original size:18 final size:18
Alignment explanation
Indices: 854913--854951 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
854903 ATTTTAAAAT
*
854913 AAAATAAAAATTAAAGTA
1 AAAATAAAAATGAAAGTA
854931 AAAATAAAAGATGAAAG-A
1 AAAATAAAA-ATGAAAGTA
854949 AAA
1 AAA
854952 TAACTTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.74, C:0.00, G:0.10, T:0.15
Consensus pattern (18 bp):
AAAATAAAAATGAAAGTA
Found at i:856590 original size:24 final size:24
Alignment explanation
Indices: 856533--856591 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
856523 TAAATAAGAA
856533 TCTATG-TCCTTGTGACACGCTTTT
1 TCTATGCT-CTTGTGACACGCTTTT
* * *
856557 TCTCTACTCTTGTGTCACGCTTTT
1 TCTATGCTCTTGTGACACGCTTTT
856581 TCTATGCTCTT
1 TCTATGCTCTT
856592 ATGGCACTGT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
24 28 0.97
25 1 0.03
ACGTcount: A:0.10, C:0.27, G:0.14, T:0.49
Consensus pattern (24 bp):
TCTATGCTCTTGTGACACGCTTTT
Found at i:857581 original size:31 final size:31
Alignment explanation
Indices: 857543--857667 Score: 155
Period size: 31 Copynumber: 4.0 Consensus size: 31
857533 CCCAAAGGAC
* * * *
857543 CAGTCCATAGATTCTGAAGAACCTAGGTAAT
1 CAGTCCATAGATCCCGAAGAACATAGGTAAA
857574 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
1 CAGTCCATA-GATCCCGAAGAACATAGGTAAA
* *
857605 CATTCCATATATCCCGAAGAACATAGGTAAA
1 CAGTCCATAGATCCCGAAGAACATAGGTAAA
*
857636 CAGTCTATATG-TCCCGAAGAACATAGGTAAA
1 CAGTCCATA-GATCCCGAAGAACATAGGTAAA
857667 C
1 C
857668 CCTCAACCCT
Statistics
Matches: 82, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
31 81 0.99
32 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (31 bp):
CAGTCCATAGATCCCGAAGAACATAGGTAAA
Found at i:858407 original size:20 final size:20
Alignment explanation
Indices: 858382--858436 Score: 110
Period size: 20 Copynumber: 2.8 Consensus size: 20
858372 CAAAATATCC
858382 ATGCATCGATGCACCCCTTA
1 ATGCATCGATGCACCCCTTA
858402 ATGCATCGATGCACCCCTTA
1 ATGCATCGATGCACCCCTTA
858422 ATGCATCGATGCACC
1 ATGCATCGATGCACC
858437 TACCCAGAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.25, C:0.35, G:0.16, T:0.24
Consensus pattern (20 bp):
ATGCATCGATGCACCCCTTA
Found at i:859972 original size:148 final size:148
Alignment explanation
Indices: 859704--859999 Score: 592
Period size: 148 Copynumber: 2.0 Consensus size: 148
859694 ATCTCTTGTA
859704 ATTGTATTTTTTATTCCTCAAAGCTCCCTTTAAAACCTGTAAATACTCTTCTCATTGCCTTAATC
1 ATTGTATTTTTTATTCCTCAAAGCTCCCTTTAAAACCTGTAAATACTCTTCTCATTGCCTTAATC
859769 ATATATATAGGATCCAAATACATAACCATATTCCAATCCATATCATACTTGATTAACTAACTTTA
66 ATATATATAGGATCCAAATACATAACCATATTCCAATCCATATCATACTTGATTAACTAACTTTA
859834 TCTTTTCTTCCAATCTTT
131 TCTTTTCTTCCAATCTTT
859852 ATTGTATTTTTTATTCCTCAAAGCTCCCTTTAAAACCTGTAAATACTCTTCTCATTGCCTTAATC
1 ATTGTATTTTTTATTCCTCAAAGCTCCCTTTAAAACCTGTAAATACTCTTCTCATTGCCTTAATC
859917 ATATATATAGGATCCAAATACATAACCATATTCCAATCCATATCATACTTGATTAACTAACTTTA
66 ATATATATAGGATCCAAATACATAACCATATTCCAATCCATATCATACTTGATTAACTAACTTTA
859982 TCTTTTCTTCCAATCTTT
131 TCTTTTCTTCCAATCTTT
860000 TAACTCTATC
Statistics
Matches: 148, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
148 148 1.00
ACGTcount: A:0.31, C:0.23, G:0.05, T:0.41
Consensus pattern (148 bp):
ATTGTATTTTTTATTCCTCAAAGCTCCCTTTAAAACCTGTAAATACTCTTCTCATTGCCTTAATC
ATATATATAGGATCCAAATACATAACCATATTCCAATCCATATCATACTTGATTAACTAACTTTA
TCTTTTCTTCCAATCTTT
Found at i:861217 original size:88 final size:89
Alignment explanation
Indices: 861068--861244 Score: 347
Period size: 88 Copynumber: 2.0 Consensus size: 89
861058 ACCCCAACCC
861068 GTACCCGACCCGGATACGAGTCTGAGATGTCACATTAACATTTCAAAACCTTTATTCTTGTAAAA
1 GTACCCGACCCGGATACGAGTCTGAGATGTCACATTAACATTTCAAAACCTTTATTCTTGTAAAA
861133 TAACTGAATA-TTGAACTTATATT
66 TAACTGAATATTTGAACTTATATT
861156 GTACCCGACCCGGATACGAGTCTGAGATGTCACATTAACATTTCAAAACCTTTATTCTTGTAAAA
1 GTACCCGACCCGGATACGAGTCTGAGATGTCACATTAACATTTCAAAACCTTTATTCTTGTAAAA
861221 TAACTGAATATTTGAACTTATATT
66 TAACTGAATATTTGAACTTATATT
861245 AAGAAAATAC
Statistics
Matches: 88, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
88 75 0.85
89 13 0.15
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.33
Consensus pattern (89 bp):
GTACCCGACCCGGATACGAGTCTGAGATGTCACATTAACATTTCAAAACCTTTATTCTTGTAAAA
TAACTGAATATTTGAACTTATATT
Found at i:861944 original size:38 final size:38
Alignment explanation
Indices: 861893--861968 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
861883 CATCCATATC
861893 ATTTCACAATAGAGCACACATAGTATCATATCAAGTTA
1 ATTTCACAATAGAGCACACATAGTATCATATCAAGTTA
861931 ATTTCACAATAGAGCACACATAGTATCATATCAAGTTA
1 ATTTCACAATAGAGCACACATAGTATCATATCAAGTTA
861969 TTTATTATCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.42, C:0.18, G:0.11, T:0.29
Consensus pattern (38 bp):
ATTTCACAATAGAGCACACATAGTATCATATCAAGTTA
Found at i:862150 original size:31 final size:31
Alignment explanation
Indices: 862107--862216 Score: 193
Period size: 31 Copynumber: 3.5 Consensus size: 31
862097 CATAGATTCT
* *
862107 GAAGAACCTAGGTAAGCAGTCCATATGTCCC
1 GAAGAACATAGGTAAACAGTCCATATGTCCC
862138 GAAGAACATAGGTAAACAGTCCATATGTCCC
1 GAAGAACATAGGTAAACAGTCCATATGTCCC
862169 GAAGAACATAGGTAAACAGTCCATATGTCCC
1 GAAGAACATAGGTAAACAGTCCATATGTCCC
*
862200 GAAGAACATATGTAAAC
1 GAAGAACATAGGTAAAC
862217 CCTCAACCCT
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 76 1.00
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.19
Consensus pattern (31 bp):
GAAGAACATAGGTAAACAGTCCATATGTCCC
Found at i:866081 original size:20 final size:20
Alignment explanation
Indices: 866055--866115 Score: 95
Period size: 20 Copynumber: 3.0 Consensus size: 20
866045 ATGTAAATAA
866055 CAACGCGATTCTGACTATCG
1 CAACGCGATTCTGACTATCG
* *
866075 TAACGCGATTCTGACTATCA
1 CAACGCGATTCTGACTATCG
*
866095 CAACGCGATTCTAACTATCG
1 CAACGCGATTCTGACTATCG
866115 C
1 C
866116 GTTGTGATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (20 bp):
CAACGCGATTCTGACTATCG
Found at i:868137 original size:6 final size:6
Alignment explanation
Indices: 868126--868155 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
868116 TCTCCATGTT
*
868126 CTCCAC CTCCAC CTCCAC ATCCAC CTCCAC
1 CTCCAC CTCCAC CTCCAC CTCCAC CTCCAC
868156 GGGATGAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.20, C:0.63, G:0.00, T:0.17
Consensus pattern (6 bp):
CTCCAC
Found at i:868590 original size:20 final size:20
Alignment explanation
Indices: 868565--868613 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
868555 AAACTTAAAA
868565 ATCGCAACGCGAAAATAACT
1 ATCGCAACGCGAAAATAACT
** *
868585 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATAACT
868605 ATCGCAACG
1 ATCGCAACG
868614 GGATAATCGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.37, C:0.27, G:0.18, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCGAAAATAACT
Found at i:868767 original size:20 final size:20
Alignment explanation
Indices: 868742--868790 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
868732 GCGATTATCC
868742 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
**
868762 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
868782 CGTTGCGAT
1 CGTTGCGAT
868791 TTTAAGTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.18, C:0.20, G:0.27, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:868800 original size:20 final size:20
Alignment explanation
Indices: 868758--868820 Score: 81
Period size: 20 Copynumber: 3.1 Consensus size: 20
868748 GATAGTCAAA
** * *
868758 TTCGCGTTGCGATAGTCATT
1 TTCGCGTTGCGATTTTAAGT
868778 TTCGCGTTGCGATTTTAAGT
1 TTCGCGTTGCGATTTTAAGT
*
868798 TTCGTGTTGCGATTTTAAGT
1 TTCGCGTTGCGATTTTAAGT
868818 TTC
1 TTC
868821 AGAAACTATT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.14, C:0.16, G:0.24, T:0.46
Consensus pattern (20 bp):
TTCGCGTTGCGATTTTAAGT
Found at i:870775 original size:16 final size:17
Alignment explanation
Indices: 870745--870781 Score: 67
Period size: 16 Copynumber: 2.2 Consensus size: 17
870735 TAATTGATTC
870745 TTAAAAGTCTGATTTGT
1 TTAAAAGTCTGATTTGT
870762 TTAAAAGT-TGATTTGT
1 TTAAAAGTCTGATTTGT
870778 TTAA
1 TTAA
870782 TTGATGTGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.32, C:0.03, G:0.16, T:0.49
Consensus pattern (17 bp):
TTAAAAGTCTGATTTGT
Found at i:870841 original size:63 final size:64
Alignment explanation
Indices: 870754--870909 Score: 233
Period size: 63 Copynumber: 2.4 Consensus size: 64
870744 CTTAAAAGTC
* *
870754 TGATTTGTTTAAAAGTTGATTTGTTTAATTGATGTGTAAATAATTCTTATTTGTGC-TTGTTTAA
1 TGATTTG--TAAAAGTTGATTTGTTTAATTGATGTGTAAATAATTCTTAGTTGTGCTTTATTTAA
870818 T
64 T
870819 TGATTTGTAAAAGTTGATTTGTTTAATTGATGTGTAAATAATTCTTAGTTGTGCTTTATTTAAT
1 TGATTTGTAAAAGTTGATTTGTTTAATTGATGTGTAAATAATTCTTAGTTGTGCTTTATTTAAT
870883 TGATTGAAATGTAAAAGTTGATTTGTT
1 TGATT----TGTAAAAGTTGATTTGTT
870910 GATTTCAATC
Statistics
Matches: 84, Mismatches: 2, Indels: 7
0.90 0.02 0.08
Matches are distributed among these distances:
63 46 0.55
64 13 0.15
65 7 0.08
68 18 0.21
ACGTcount: A:0.28, C:0.03, G:0.18, T:0.51
Consensus pattern (64 bp):
TGATTTGTAAAAGTTGATTTGTTTAATTGATGTGTAAATAATTCTTAGTTGTGCTTTATTTAAT
Found at i:870986 original size:20 final size:20
Alignment explanation
Indices: 870961--871010 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
870951 AGGTATACTT
*
870961 TCGCAACGCTAAA-CTCAAAA
1 TCGCAACGCGAAAGC-CAAAA
*
870981 TCGCAATGCGAAAGCCAAAA
1 TCGCAACGCGAAAGCCAAAA
871001 TCGCAACGCG
1 TCGCAACGCG
871011 GAAGTTAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 25 0.96
21 1 0.04
ACGTcount: A:0.40, C:0.30, G:0.18, T:0.12
Consensus pattern (20 bp):
TCGCAACGCGAAAGCCAAAA
Found at i:871082 original size:20 final size:20
Alignment explanation
Indices: 871017--871153 Score: 160
Period size: 20 Copynumber: 7.2 Consensus size: 20
871007 CGCGGAAGTT
*
871017 AATTCGCGTTGCGATAGTCT
1 AATTCGCGTTGCGATAGTCA
* *
871037 AATACGCTTTGCGAT--T--
1 AATTCGCGTTGCGATAGTCA
*
871053 --TTCTCGTTGCGATAGTCA
1 AATTCGCGTTGCGATAGTCA
* *
871071 AATTCCCGTTGCGATAATCA
1 AATTCGCGTTGCGATAGTCA
*
871091 AATTCACGTTGCGATAGTCA
1 AATTCGCGTTGCGATAGTCA
871111 AATTCGCGTTGCGATAGTCA
1 AATTCGCGTTGCGATAGTCA
*
871131 AATTCGCGTTGCGATATTCA
1 AATTCGCGTTGCGATAGTCA
871151 AAT
1 AAT
871154 GAATGTGTAA
Statistics
Matches: 100, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
14 10 0.10
16 1 0.01
18 1 0.01
20 88 0.88
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (20 bp):
AATTCGCGTTGCGATAGTCA
Found at i:871376 original size:140 final size:140
Alignment explanation
Indices: 871124--871406 Score: 548
Period size: 140 Copynumber: 2.0 Consensus size: 140
871114 TCGCGTTGCG
*
871124 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTTAACAGATCA
1 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
871189 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
871254 AATACACATA
131 AATACACATA
871264 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
1 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
*
871329 TAGCAATGTTCAAACTCAAGTTACTAATACATGGCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
871394 AATACACATA
131 AATACACATA
871404 ATA
1 ATA
871407 CAACGTTTTC
Statistics
Matches: 141, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
140 141 1.00
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.28
Consensus pattern (140 bp):
ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
AATACACATA
Found at i:873164 original size:15 final size:14
Alignment explanation
Indices: 873128--873164 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
873118 TCCCGTGGCA
873128 TTTTCTTCGGGGAT
1 TTTTCTTCGGGGAT
873142 TTTTCTTCGGGGAT
1 TTTTCTTCGGGGAT
873156 TTCTTCTTC
1 TT-TTCTTC
873165 TTCTTTTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 16 0.73
15 6 0.27
ACGTcount: A:0.05, C:0.19, G:0.22, T:0.54
Consensus pattern (14 bp):
TTTTCTTCGGGGAT
Found at i:873388 original size:24 final size:24
Alignment explanation
Indices: 873354--873407 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
873344 CTGAAACATC
873354 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
873378 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
873402 ATCAAA
1 ATCAAA
873408 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:873421 original size:24 final size:24
Alignment explanation
Indices: 873354--873421 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
873344 CTGAAACATC
* * *
873354 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
873378 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
873402 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
873422 TAGTACTTAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:874386 original size:19 final size:19
Alignment explanation
Indices: 874362--874398 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
874352 TGCGATACTG
*
874362 GAGATCGCGTTACGATTTA
1 GAGATCGCATTACGATTTA
*
874381 GAGATCGCATTGCGATTT
1 GAGATCGCATTACGATTT
874399 TATTGGTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.32
Consensus pattern (19 bp):
GAGATCGCATTACGATTTA
Found at i:883405 original size:2 final size:2
Alignment explanation
Indices: 883398--883423 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
883388 TTTTTAGCTA
883398 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
883424 CAACAAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:890242 original size:37 final size:37
Alignment explanation
Indices: 890191--890261 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
890181 TTCTTCACGA
*
890191 ATTTCTCTAGTTACTATTGTTTCCTCTTTAATTTCTC
1 ATTTCTCTACTTACTATTGTTTCCTCTTTAATTTCTC
*
890228 ATTTCTTTACTTACTATTGTTTCCTCTTTAATTT
1 ATTTCTCTACTTACTATTGTTTCCTCTTTAATTT
890262 ATCACCAACT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.17, C:0.20, G:0.04, T:0.59
Consensus pattern (37 bp):
ATTTCTCTACTTACTATTGTTTCCTCTTTAATTTCTC
Found at i:892408 original size:21 final size:21
Alignment explanation
Indices: 892383--892426 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
892373 TATAGACCTA
892383 TTAAAAATATCTATTTTT-TTC
1 TTAAAAATAT-TATTTTTATTC
**
892404 TTAAAGTTATTATTTTTATTC
1 TTAAAAATATTATTTTTATTC
892425 TT
1 TT
892427 TCTAGATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (21 bp):
TTAAAAATATTATTTTTATTC
Found at i:900889 original size:3 final size:3
Alignment explanation
Indices: 900881--900910 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
900871 CTGGTAAACA
900881 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
900911 GTGGAAAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:909754 original size:12 final size:12
Alignment explanation
Indices: 909737--909801 Score: 51
Period size: 12 Copynumber: 5.2 Consensus size: 12
909727 TTTCATTTGA
909737 ATATTATTATAT
1 ATATTATTATAT
909749 ATATTATTAT-T
1 ATATTATTATAT
*
909760 ATTATTATTTTTATT
1 A-TATTA-TTATA-T
* *
909775 TTATTATTAATAA
1 ATATTATT-ATAT
*
909788 ATATTATTACAT
1 ATATTATTATAT
909800 AT
1 AT
909802 TACAGGCCCA
Statistics
Matches: 41, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
11 2 0.05
12 19 0.46
13 12 0.29
14 7 0.17
15 1 0.02
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (12 bp):
ATATTATTATAT
Found at i:909796 original size:3 final size:3
Alignment explanation
Indices: 909738--909783 Score: 60
Period size: 3 Copynumber: 15.7 Consensus size: 3
909728 TTCATTTGAA
*
909738 TAT TAT TA- TAT ATAT TAT TAT TAT TAT TAT TTT TAT T-T TAT TAT
1 TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
909782 TA
1 TA
909784 ATAAATATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 4 0.11
3 31 0.82
4 3 0.08
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:911344 original size:20 final size:20
Alignment explanation
Indices: 911321--911380 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 20
911311 ATTCGCGTTG
*
911321 CATTTCGCGTTGCGATTTTT
1 CATTTCGCGTTGCGATTTTC
911341 CATTTCGTTCGCGTTGCGATTTTC
1 CA--T--TTCGCGTTGCGATTTTC
911365 CATTTCGCGTTGCGAT
1 CATTTCGCGTTGCGAT
911381 AGTTTACAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
20 15 0.43
22 2 0.06
24 18 0.51
ACGTcount: A:0.10, C:0.23, G:0.22, T:0.45
Consensus pattern (20 bp):
CATTTCGCGTTGCGATTTTC
Found at i:911356 original size:24 final size:24
Alignment explanation
Indices: 911324--911371 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
911314 CGCGTTGCAT
*
911324 TTCGCGTTGCGATTTTTCATTTCG
1 TTCGCGTTGCGATTTTCCATTTCG
911348 TTCGCGTTGCGATTTTCCATTTCG
1 TTCGCGTTGCGATTTTCCATTTCG
911372 CGTTGCGATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.08, C:0.23, G:0.21, T:0.48
Consensus pattern (24 bp):
TTCGCGTTGCGATTTTCCATTTCG
Found at i:912148 original size:35 final size:35
Alignment explanation
Indices: 912109--912176 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
912099 TATTATTATT
* *
912109 TATTATTATTATATATATAAATAATATTTATTTAG
1 TATTATAAATATATATATAAATAATATTTATTTAG
912144 TATTATAAATATATATATAAATAATATTTATTT
1 TATTATAAATATATATATAAATAATATTTATTT
912177 TATGGAATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (35 bp):
TATTATAAATATATATATAAATAATATTTATTTAG
Found at i:913031 original size:20 final size:21
Alignment explanation
Indices: 912997--913046 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
912987 TATATATATT
912997 TATTATTTTCATAAT-ATTTA
1 TATTATTTTCATAATGATTTA
*
913017 TATTATTTT-ATTAATGTTTTA
1 TATTATTTTCA-TAATGATTTA
*
913038 TTTTATTTT
1 TATTATTTT
913047 TCAAGTATTC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 1 0.04
20 13 0.50
21 12 0.46
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (21 bp):
TATTATTTTCATAATGATTTA
Found at i:920144 original size:18 final size:18
Alignment explanation
Indices: 920121--920161 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
920111 AAATAGCAAT
*
920121 CATTTTTTACATTCTTTA
1 CATTTTTTACATTCATTA
*
920139 CATTTTTTCCATTCATTA
1 CATTTTTTACATTCATTA
920157 -ATTTT
1 CATTTT
920162 CATTTATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.22, C:0.17, G:0.00, T:0.61
Consensus pattern (18 bp):
CATTTTTTACATTCATTA
Found at i:925501 original size:113 final size:114
Alignment explanation
Indices: 925369--925924 Score: 575
Period size: 113 Copynumber: 4.7 Consensus size: 114
925359 ACATAAATTT
*
925369 TTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAATAAGAAGTTCATAATGA
1 TTTTT-CAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
*
925434 GAAGAATTTATTCAAACTTTTTGTTTGAATTCATCATTCGATGGATCAAC
65 GAAGAATTTGTTCAAACTTTTTGTTTGAATTCATCATTCGATGGATCAAC
925484 TTTTTCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAG
1 TTTTTCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAG
** * ** * *** *
925548 AAGAGCTTGTTC-AACCTTTTGCATG-ACTCTATCACAGAAGAAGATAGATCAACATC
66 AAGAATTTGTTCAAACTTTTTGTTTGAATTC-AT--C---ATTCGATGGATC-A-A-C
925604 AATTTTTTTCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAA
1 ----TTTTTCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAA
*
925669 TGAGAAGAATTTGTTCAAACTTTTTGTTTGAATTCATTATTCGATGGATCAAC
62 TGAGAAGAATTTGTTCAAACTTTTTGTTTGAATTCATCATTCGATGGATCAAC
*
925722 TTTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAG
1 TTTTTCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAG
** * ** * *** *
925786 AAGAGCTTGTTC-AACCTTTTGCATG-ACTCTATCACAGAAGGAGATAGATCAACATC
66 AAGAATTTGTTCAAACTTTTTGTTTGAATTC-AT--C---ATTCGATGGATC-A-A-C
* * * *
925842 AATTTTTTCCAGAGAAAATTCATAATAAGAAGAACTCATCTGAAGAAGCAAAAAGAAGTTCATAA
1 ---TTTTT-CAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAA
925907 TGAGAAGAATTTGTTCAA
62 TGAGAAGAATTTGTTCAA
925925 CCTCTTGTAT
Statistics
Matches: 368, Mismatches: 42, Indels: 51
0.80 0.09 0.11
Matches are distributed among these distances:
111 6 0.02
112 24 0.07
113 126 0.34
114 15 0.04
115 5 0.01
117 16 0.04
118 3 0.01
119 3 0.01
120 3 0.01
121 8 0.02
123 4 0.01
124 15 0.04
125 124 0.34
126 13 0.04
127 3 0.01
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.29
Consensus pattern (114 bp):
TTTTTCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAG
AAGAATTTGTTCAAACTTTTTGTTTGAATTCATCATTCGATGGATCAAC
Found at i:925635 original size:125 final size:124
Alignment explanation
Indices: 925478--926010 Score: 648
Period size: 125 Copynumber: 4.4 Consensus size: 124
925468 CATTCGATGG
*
925478 ATCAACTTTTTCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
1 ATCAATTTTTTCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
* *
925542 AATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGAAGATAGATCAAC
66 AATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAAC
925601 ATCAATTTTTTTCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
1 ATCAA-TTTTTTCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
* * ** * ** *** *
925666 TAATGAGAAGAATTTGTTCAAACTTTTTGTTTGA----AT-TCATTATTCGATGGATC-A-
65 TAATGAGAAGAACTTGTTC-AACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAAC
*
925720 A-C---TTTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
1 ATCAATTTTTTCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
*
925780 AATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAAC
66 AATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAAC
* * * *
925839 ATCAATTTTTTCCAGAGAAAATTCATAATAAGAAGAACTCATCTGAAGAAGCAAAAAGAAGTTCA
1 ATCAATTTTTT-CAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
* * * * * * *
925904 TAATGAGAAGAATTTGTTCAACCTCTTGTAT-AATCTATCACAAAAGGAGATAGATTAGC
65 TAATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAAC
** *
925963 ATCAACATTTTCAGA-AATA-TTTATAATGAGAAGAACTCATCTGAAGAA
1 ATCAATTTTTTCAGAGAA-AGTTCATAATGAGAAGAACTCATCTGAAGAA
926011 TAAGGAGAAG
Statistics
Matches: 350, Mismatches: 43, Indels: 35
0.82 0.10 0.08
Matches are distributed among these distances:
112 11 0.03
113 64 0.18
114 9 0.03
116 2 0.01
117 10 0.03
118 2 0.01
119 2 0.01
120 2 0.01
121 10 0.03
122 31 0.09
123 14 0.04
124 48 0.14
125 134 0.38
126 11 0.03
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.28
Consensus pattern (124 bp):
ATCAATTTTTTCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
AATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAAC
Found at i:925678 original size:238 final size:238
Alignment explanation
Indices: 925234--925924 Score: 1215
Period size: 238 Copynumber: 2.9 Consensus size: 238
925224 ATCTATCACA
*
925234 ATGGATCAACATTTCCAGA-AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
1 ATGGATCAACTTTTCCAGAGA-AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
*
925298 TCATAATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCATAGAA-AGAGATAGATCAACA
65 TCATAATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGA-AGATAGATCAACA
* *
925362 TAAATTTTTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAATAAGAAGTTC
129 TCAA-TTTTTTT-CAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAAAAGAAGTTC
*
925427 ATAATGAGAAGAATTTATTCAAACTTTTTGTTTGAATTCATCATTCG
192 ATAATGAGAAGAATTTGTTCAAACTTTTTGTTTGAATTCATCATTCG
*
925474 ATGGATCAACTTTTTCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTT
1 ATGGATCAACTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTT
925539 CATAATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGAAGATAGATCAACATC
66 CATAATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGAAGATAGATCAACATC
*
925604 AATTTTTTTCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAA
131 AATTTTTTTCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAAAAGAAGTTCATAA
*
925669 TGAGAAGAATTTGTTCAAACTTTTTGTTTGAATTCATTATTCG
196 TGAGAAGAATTTGTTCAAACTTTTTGTTTGAATTCATCATTCG
925712 ATGGATCAACTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTT
1 ATGGATCAACTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTT
*
925777 CATAATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAACATC
66 CATAATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGAAGATAGATCAACATC
* * * *
925842 AATTTTTTCCAGAGAAAATTCATAATAAGAAGAACTCATCTGAAGAAGCAAAAAGAAGTTCATAA
131 AATTTTTTTCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAAAAGAAGTTCATAA
925907 TGAGAAGAATTTGTTCAA
196 TGAGAAGAATTTGTTCAA
925925 CCTCTTGTAT
Statistics
Matches: 435, Mismatches: 14, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
238 302 0.69
239 7 0.02
240 124 0.29
241 2 0.00
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.28
Consensus pattern (238 bp):
ATGGATCAACTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTT
CATAATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGAAGATAGATCAACATC
AATTTTTTTCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAAAAGAAGTTCATAA
TGAGAAGAATTTGTTCAAACTTTTTGTTTGAATTCATCATTCG
Found at i:926313 original size:3 final size:3
Alignment explanation
Indices: 926258--926300 Score: 54
Period size: 3 Copynumber: 14.7 Consensus size: 3
926248 TTCTTTTGAA
*
926258 TAT TA- TAT ATAT AAT TAT TAT TAT TAT TAT TAT T-T TAT TAT TA
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
926301 ATAAATATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
2 4 0.11
3 28 0.80
4 3 0.09
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:932710 original size:23 final size:23
Alignment explanation
Indices: 932675--932722 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
932665 ATCAAGTACA
*
932675 ATAATATATTAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
*
932698 ATAATGTAATAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
932721 AT
1 AT
932723 TGACATATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.38
Consensus pattern (23 bp):
ATAATATAATAGGTAGCGCTTAT
Found at i:932973 original size:20 final size:20
Alignment explanation
Indices: 932950--932988 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
932940 CCAATATATT
* *
932950 TTTACCGGTTACATTATAAA
1 TTTACAGGTTACATAATAAA
*
932970 TTTACATGTTACATAATAA
1 TTTACAGGTTACATAATAA
932989 TTATCGATTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.41
Consensus pattern (20 bp):
TTTACAGGTTACATAATAAA
Found at i:933649 original size:182 final size:182
Alignment explanation
Indices: 933339--933791 Score: 712
Period size: 182 Copynumber: 2.5 Consensus size: 182
933329 CACTTTTTAC
* *
933339 TACCGGTTTTGTCATTTCGAGATCGATTTTGTCATATTTTTACATGTTATATTGTTATGGATTGA
1 TACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATTGA
* * * * *
933404 TACATTTTTATAAAGTATCGATACTTTATTGGCGCTATAACTTCTTTTCTTTTAAATTCCAAAAG
66 TACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCCTTTAAACTCCAAAAG
* * * *
933469 TATCGATACTTATAATAAAATATCGACATTATTAATATATTCGGTAGCTCTT
131 TATCGATACTTATAATAAAATATCGACACTATCAACATATTCGGTAGCGCTT
*
933521 TACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTATC-TGTTATATTGTTATAGATTG
1 TACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTA-CATGTTATATTGTTATGGATTG
933585 ATACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCCTTTAAACTCCAAAA
65 ATACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCCTTTAAACTCCAAAA
*
933650 GTATCGATACTTATAATAAAGTATCGACACTATCAACATATTCGGTAGCGCTT
130 GTATCGATACTTATAATAAAATATCGACACTATCAACATATTCGGTAGCGCTT
* ** * * *
933703 TACCTGTTTTGTCATTTATAGACCGGTTTTGTCAT-TTTTTACTTGTTTTATTGTTATGGATCGA
1 TACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATTGA
933767 TACATTTTTATAAAGTATCGACACT
66 TACATTTTTATAAAGTATCGACACT
933792 ATCAACATAT
Statistics
Matches: 250, Mismatches: 19, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
180 1 0.00
181 49 0.20
182 199 0.80
183 1 0.00
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.44
Consensus pattern (182 bp):
TACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATTGA
TACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCCTTTAAACTCCAAAAG
TATCGATACTTATAATAAAATATCGACACTATCAACATATTCGGTAGCGCTT
Found at i:933917 original size:112 final size:111
Alignment explanation
Indices: 933665--934014 Score: 576
Period size: 112 Copynumber: 3.1 Consensus size: 111
933655 GATACTTATA
*
933665 ATAAAGTATCGACACTATCAACATATTCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* *
933730 TTTGTCA-TTTTTTACTTGTTTTATTGTTATGGATCGATACATTTTT
66 TTTGTCATTTTTTTACTTGTTATATTGTTATGGAT-AATACATTTTT
*
933776 ATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACTGGT
1 ATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* *
933841 TTTGTCATTTTTTTACCTGTTATATTATTATGGATATATACATTTTT
66 TTTGTCATTTTTTTACTTGTTATATTGTTATGGATA-ATACATTTTT
* * *
933888 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGAT
1 ATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
*
933953 TTTGTCATTTTTTTACTTGTTATATTGTTATGGATCAATATATTTTT
66 TTTGTCATTTTTTTACTTGTTATATTGTTATGGAT-AATACATTTTT
934000 ATAAAGTATCGACAC
1 ATAAAGTATCGACAC
934015 AAACCGACAA
Statistics
Matches: 223, Mismatches: 13, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
111 70 0.31
112 152 0.68
113 1 0.00
ACGTcount: A:0.26, C:0.15, G:0.14, T:0.45
Consensus pattern (111 bp):
ATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
TTTGTCATTTTTTTACTTGTTATATTGTTATGGATAATACATTTTT
Found at i:935074 original size:3 final size:3
Alignment explanation
Indices: 935068--935120 Score: 54
Period size: 3 Copynumber: 17.0 Consensus size: 3
935058 TTGATTTTTT
* *
935068 TTA TTA -TA TTTA TTTA TTA CTA TTA TTA TTA TTA TTAA ATA TTA TTA
1 TTA TTA TTA -TTA -TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA
935115 TTA TTA
1 TTA TTA
935121 CATTGCAGGC
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
2 2 0.05
3 33 0.77
4 8 0.19
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:935096 original size:22 final size:22
Alignment explanation
Indices: 935068--935120 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
935058 TTGATTTTTT
* *
935068 TTATTA-TATTTATTTATTACTA
1 TTATTATTA-TTATTAAATACTA
*
935090 TTATTATTATTATTAAATATTA
1 TTATTATTATTATTAAATACTA
935112 TTATTATTA
1 TTATTATTA
935121 CATTGCAGGC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 25 0.93
23 2 0.07
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (22 bp):
TTATTATTATTATTAAATACTA
Found at i:935099 original size:19 final size:20
Alignment explanation
Indices: 935077--935119 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
935067 TTTATTATAT
*
935077 TTATTTATT-ACTATTATTA
1 TTATTTATTAAATATTATTA
935096 TTA-TTATTAAATATTATTA
1 TTATTTATTAAATATTATTA
935115 TTATT
1 TTATT
935120 ACATTGCAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 5 0.24
19 15 0.71
20 1 0.05
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (20 bp):
TTATTTATTAAATATTATTA
Found at i:936857 original size:14 final size:14
Alignment explanation
Indices: 936838--936877 Score: 80
Period size: 14 Copynumber: 2.9 Consensus size: 14
936828 GGATAAATGT
936838 TTTATTAATATTTA
1 TTTATTAATATTTA
936852 TTTATTAATATTTA
1 TTTATTAATATTTA
936866 TTTATTAATATT
1 TTTATTAATATT
936878 AAGAAAGGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
TTTATTAATATTTA
Found at i:936970 original size:13 final size:13
Alignment explanation
Indices: 936932--936975 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
936922 TTTCTAAATA
*
936932 AATATATTATTTT
1 AATATATTATATT
* *
936945 AAAATATAGATATT
1 AATATAT-TATATT
936959 AATATATTATATT
1 AATATATTATATT
936972 AATA
1 AATA
936976 AGTTTGAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 15 0.60
14 10 0.40
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (13 bp):
AATATATTATATT
Found at i:939116 original size:12 final size:12
Alignment explanation
Indices: 939099--939126 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
939089 ACATTCACAT
939099 ATTTACATTTGC
1 ATTTACATTTGC
939111 ATTTACATTTGC
1 ATTTACATTTGC
939123 ATTT
1 ATTT
939127 TTTACGTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.25, C:0.14, G:0.07, T:0.54
Consensus pattern (12 bp):
ATTTACATTTGC
Found at i:939153 original size:27 final size:27
Alignment explanation
Indices: 939100--939159 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
939090 CATTCACATA
*
939100 TTTACATTTGCATTTACATTTGCATTT
1 TTTACATTTGCATTTACATTTGAATTT
* * *
939127 TTTACGTTTGTATTTACATTTTAA-TT
1 TTTACATTTGCATTTACATTTGAATTT
939153 TTTACAT
1 TTTACAT
939160 AATTACATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.23, C:0.12, G:0.07, T:0.58
Consensus pattern (27 bp):
TTTACATTTGCATTTACATTTGAATTT
Found at i:940978 original size:8 final size:8
Alignment explanation
Indices: 940950--941008 Score: 66
Period size: 8 Copynumber: 7.0 Consensus size: 8
940940 CTCATCCAGC
940950 AAAGAAAGA
1 AAAGAAA-A
*
940959 AGAAGGAAA
1 A-AAGAAAA
940968 AAAGAAAA
1 AAAGAAAA
940976 AAA-AATAA
1 AAAGAA-AA
940984 AAAGAAAA
1 AAAGAAAA
940992 AAAGAAAA
1 AAAGAAAA
941000 AAAGGAAAA
1 AAA-GAAAA
941009 TTGAATCAGG
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
7 2 0.05
8 27 0.61
9 10 0.23
10 5 0.11
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (8 bp):
AAAGAAAA
Found at i:945801 original size:3 final size:3
Alignment explanation
Indices: 945793--945867 Score: 91
Period size: 3 Copynumber: 25.0 Consensus size: 3
945783 TTTTATTTAT
* * *
945793 TTA TTA TTA TTA TTA TTA TAA TTA TAA TTA TTA TAA TTA TTA -TA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
945841 TTA TTA -TA TATA TTA TTA TTA TTA TTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA
945868 AAAAATAATT
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
2 4 0.06
3 52 0.84
4 6 0.10
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:953050 original size:20 final size:18
Alignment explanation
Indices: 953025--953069 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 18
953015 TATTATACTT
953025 GAAAAAAAAGGAAAAAATG
1 GAAAAAAAAGGAAAAAA-G
*
953044 AGAAAAAAAAGGATAAAAG
1 -GAAAAAAAAGGAAAAAAG
953063 GAAAAAA
1 GAAAAAA
953070 TTGAACCAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 7 0.29
19 1 0.04
20 16 0.67
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (18 bp):
GAAAAAAAAGGAAAAAAG
Found at i:955445 original size:114 final size:114
Alignment explanation
Indices: 955244--955463 Score: 370
Period size: 114 Copynumber: 1.9 Consensus size: 114
955234 CACATTCTCG
*
955244 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATCTGGTTT
1 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATCTGGTTC
* *
955309 GGTATGAACCCCAAAACCAATCATTAGATTTGAAAGATGAATTTGCTCA
66 GGTAGGAACCCCAAAACCAATCATTAGAATTGAAAGATGAATTTGCTCA
*
955358 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTC
1 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATCTGGTTC
* *
955423 GGTAGGAA-CCCAAGAACTAATCATTGGAATTGAAAGATGAA
66 GGTAGGAACCCCAA-AACCAATCATTAGAATTGAAAGATGAA
955464 CTGCATGATC
Statistics
Matches: 99, Mismatches: 6, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
113 5 0.05
114 94 0.95
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (114 bp):
TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATCTGGTTC
GGTAGGAACCCCAAAACCAATCATTAGAATTGAAAGATGAATTTGCTCA
Found at i:958510 original size:113 final size:113
Alignment explanation
Indices: 958312--958974 Score: 1105
Period size: 113 Copynumber: 5.9 Consensus size: 113
958302 TTAGCAAAGA
958312 CTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
1 CTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
958377 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
66 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
*
958425 CTCAAATCCATCATTTTATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
1 CTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
958490 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
66 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
*
958538 CTCAAATCCATCATTTGATGAATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCT
1 CTCAAATCCATCATTTGATGGATCAGCTTTTCCAG-AAAAAGTTCATAATGAGAAGAACTCATCT
958603 GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
65 GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
958652 CTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
1 CTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
958717 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
66 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
* * * *
958765 CTCAAATCCATCACTTGATGAATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTG
1 CTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
* *
958830 AAGAAGAAAGAAGAAGA-TCATAATGAGAAGAATTTGTTCAACCTTTTA
66 AAGAAGGAAGAAGAA-ATTCATAATGAGAAGAATTTGTTCAACCTTTTG
* ** * * * * * * *
958878 TTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAGAA-TTCATAATGAGAAGAACTTATCT
1 CTCAAATCCATCATTTGATGGATCAGCTTTTCCA-GAAAAAGTTCATAATGAGAAGAACTCATCT
* *
958942 GAAGAAAGAAGAAGAAGTTCATAATGAGAAGAA
65 GAAGAAGGAAGAAGAAATTCATAATGAGAAGAA
958975 CTCATCTGAA
Statistics
Matches: 521, Mismatches: 25, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
113 405 0.78
114 116 0.22
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.28
Consensus pattern (113 bp):
CTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
Found at i:958706 original size:227 final size:226
Alignment explanation
Indices: 958312--958974 Score: 1114
Period size: 227 Copynumber: 2.9 Consensus size: 226
958302 TTAGCAAAGA
*
958312 CTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
1 CTCAAATCCATCATTTGATGAATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
*
958377 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTT
66 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTG
958442 ATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
131 ATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
958507 TCATAATGAGAAGAATTTGTTCAACCTTTTG
196 TCATAATGAGAAGAATTTGTTCAACCTTTTG
958538 CTCAAATCCATCATTTGATGAATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCT
1 CTCAAATCCATCATTTGATGAATCAGCTTTTCCAG-AAAAAGTTCATAATGAGAAGAACTCATCT
958603 GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTT
65 GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTT
958668 GATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAA
130 GATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAA
958733 TTCATAATGAGAAGAATTTGTTCAACCTTTTG
195 TTCATAATGAGAAGAATTTGTTCAACCTTTTG
* * *
958765 CTCAAATCCATCACTTGATGAATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTG
1 CTCAAATCCATCATTTGATGAATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
* ** ** *
958830 AAGAAGAAAGAAGAAGA-TCATAATGAGAAGAATTTGTTCAACCTTTTATTTGAATTCATCATTT
66 AAGAAGGAAGAAGAA-ATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTT
* * * * * * *
958894 GATGGATCAACATTGCCAGGTAGAA-TTCATAATGAGAAGAACTTATCTGAAGAAAGAAGAAGAA
130 GATGGATCAGCTTTTCCA-GAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
*
958958 GTTCATAATGAGAAGAA
194 ATTCATAATGAGAAGAA
958975 CTCATCTGAA
Statistics
Matches: 415, Mismatches: 19, Indels: 6
0.94 0.04 0.01
Matches are distributed among these distances:
226 187 0.45
227 228 0.55
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.28
Consensus pattern (226 bp):
CTCAAATCCATCATTTGATGAATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTG
ATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
TCATAATGAGAAGAATTTGTTCAACCTTTTG
Found at i:958974 original size:40 final size:40
Alignment explanation
Indices: 958915--959329 Score: 687
Period size: 40 Copynumber: 10.5 Consensus size: 40
958905 ATTGCCAGGT
*
958915 AGAA-TTCATAATGAGAAGAACTTATCTGAAGAAAGAAGA
1 AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGA
*
958954 AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAATAAGA
1 AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGA
958994 AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGA
1 AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGA
* * *
959034 ATAAATTCATAATGAGAAGAACTCATCTAAAG-AAGAAGA
1 AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGA
* *
959073 AGAAGTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGA
1 AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGA
*
959112 AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAATAAGA
1 AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGA
959152 AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGA
1 AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGA
* *
959192 AGAAATTCATAATGAGAAGAACTCATCTAAAG-AAGAAGA
1 AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGA
* *
959231 AGAAGTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGA
1 AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGA
959270 AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGA
1 AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGA
959310 AGAAGTTCATAATGAGAAGA
1 AGAAGTTCATAATGAGAAGA
959330 GCTTGTTCGA
Statistics
Matches: 350, Mismatches: 23, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
39 149 0.43
40 201 0.57
ACGTcount: A:0.50, C:0.09, G:0.21, T:0.19
Consensus pattern (40 bp):
AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGA
Found at i:959051 original size:20 final size:20
Alignment explanation
Indices: 959028--959093 Score: 57
Period size: 20 Copynumber: 3.4 Consensus size: 20
959018 ATCTGAAGAA
959028 AGAAGAATAAATTCATAATG
1 AGAAGAATAAATTCATAATG
* *
959048 AGAAGAACT-CA-TC-TAAAG
1 AGAAGAA-TAAATTCATAATG
* *
959066 AAGAAGAAGAAGTTCATAATG
1 -AGAAGAATAAATTCATAATG
959087 AGAAGAA
1 AGAAGAA
959094 CTTATCTGAA
Statistics
Matches: 35, Mismatches: 6, Indels: 10
0.69 0.12 0.20
Matches are distributed among these distances:
18 4 0.11
19 9 0.26
20 17 0.49
21 5 0.14
ACGTcount: A:0.55, C:0.08, G:0.20, T:0.18
Consensus pattern (20 bp):
AGAAGAATAAATTCATAATG
Found at i:959140 original size:158 final size:158
Alignment explanation
Indices: 958915--959329 Score: 787
Period size: 158 Copynumber: 2.6 Consensus size: 158
958905 ATTGCCAGGT
*
958915 AGAA-TTCATAATGAGAAGAACTTATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTCA
1 AGAAGTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAACTCA
*
958979 TCTGAAGAAATAAGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAATAAATTCAT
65 TCTGAAGAAATAAGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAATTCAT
959044 AATGAGAAGAACTCATCTAAAGAAGAAGA
130 AATGAGAAGAACTCATCTAAAGAAGAAGA
959073 AGAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTCAT
1 AGAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTCAT
959138 CTGAAGAAATAAGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAATTCATA
66 CTGAAGAAATAAGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAATTCATA
959203 ATGAGAAGAACTCATCTAAAGAAGAAGA
131 ATGAGAAGAACTCATCTAAAGAAGAAGA
959231 AGAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTCAT
1 AGAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTCAT
*
959296 CTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGA
66 CTGAAGAAATAAGAAGAAGTTCATAATGAGAAGA
959330 GCTTGTTCGA
Statistics
Matches: 253, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
158 226 0.89
159 27 0.11
ACGTcount: A:0.50, C:0.09, G:0.21, T:0.19
Consensus pattern (158 bp):
AGAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTCAT
CTGAAGAAATAAGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAATTCATA
ATGAGAAGAACTCATCTAAAGAAGAAGA
Found at i:959152 original size:79 final size:80
Alignment explanation
Indices: 958915--959329 Score: 696
Period size: 79 Copynumber: 5.2 Consensus size: 80
958905 ATTGCCAGGT
958915 AGAA-TTCATAATGAGAAGAACTTATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTCA
1 AGAAGTTCATAATGAGAAGAACTTATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTCA
*
958979 TCTGAAGAAATAAGA
66 TCTGAAGAAAGAAGA
* * *
958994 AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAATAAATTCATAATGAGAAGAACTCA
1 AGAAGTTCATAATGAGAAGAACTTATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTCA
*
959059 TCTAAAG-AAGAAGA
66 TCTGAAGAAAGAAGA
*
959073 AGAAGTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAACTCA
1 AGAAGTTCATAATGAGAAGAACTTATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTCA
*
959137 TCTGAAGAAATAAGA
66 TCTGAAGAAAGAAGA
* *
959152 AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAATTCATAATGAGAAGAACTCA
1 AGAAGTTCATAATGAGAAGAACTTATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTCA
*
959217 TCTAAAG-AAGAAGA
66 TCTGAAGAAAGAAGA
*
959231 AGAAGTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAACTCA
1 AGAAGTTCATAATGAGAAGAACTTATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTCA
959295 TCTGAAGAAAGAAGA
66 TCTGAAGAAAGAAGA
959310 AGAAGTTCATAATGAGAAGA
1 AGAAGTTCATAATGAGAAGA
959330 GCTTGTTCGA
Statistics
Matches: 312, Mismatches: 20, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
78 71 0.23
79 142 0.46
80 99 0.32
ACGTcount: A:0.50, C:0.09, G:0.21, T:0.19
Consensus pattern (80 bp):
AGAAGTTCATAATGAGAAGAACTTATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTCA
TCTGAAGAAAGAAGA
Done.