Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008803.1 Hibiscus syriacus cultivar Beakdansim tig00111954_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: 1826237
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 9
Found at i:1158935 original size:18 final size:18
Alignment explanation
Indices: 1158897--1158950 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
1158887 CTCTTATTTC
* *
1158897 TTTATT-TTTTTCTCTTA
1 TTTATTATTTTTCTTTTT
1158914 TTTATTATTTTTCTTTTT
1 TTTATTATTTTTCTTTTT
*
1158932 TTTA-TATCTTCTCTTTTT
1 TTTATTAT-TTTTCTTTTT
1158950 T
1 T
1158951 CTCTATGTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
17 9 0.28
18 23 0.72
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTATTATTTTTCTTTTT
Found at i:1160663 original size:28 final size:28
Alignment explanation
Indices: 1160631--1160691 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
1160621 TACTCAGCAT
1160631 GTAGATGTCCT-GCTTGTCTCCTTAGTAG
1 GTAGATGT-CTGGCTTGTCTCCTTAGTAG
*
1160659 GTAGATGTGTGGCTTGTCTCCTTAGTAG
1 GTAGATGTCTGGCTTGTCTCCTTAGTAG
1160687 GTAGA
1 GTAGA
1160692 CTATCTCTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 1 0.03
28 30 0.97
ACGTcount: A:0.16, C:0.16, G:0.30, T:0.38
Consensus pattern (28 bp):
GTAGATGTCTGGCTTGTCTCCTTAGTAG
Found at i:1179710 original size:21 final size:21
Alignment explanation
Indices: 1179683--1179738 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
1179673 TACTGGTGGG
* *
1179683 CTGGTATCTATATCAGATAAA
1 CTGGTATCCATACCAGATAAA
* *
1179704 TTGGTATCCATACCAGATGAA
1 CTGGTATCCATACCAGATAAA
1179725 CTGGTATCCATACC
1 CTGGTATCCATACC
1179739 GAAGGGTTGG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.30
Consensus pattern (21 bp):
CTGGTATCCATACCAGATAAA
Found at i:1188869 original size:75 final size:75
Alignment explanation
Indices: 1188780--1188930 Score: 302
Period size: 75 Copynumber: 2.0 Consensus size: 75
1188770 CTAAGTCTGT
1188780 CCTAGAACAATACAATAACGTAAACGAGATGAGGCTAGACTGTGTAATGCTACAAGGGATAAAAA
1 CCTAGAACAATACAATAACGTAAACGAGATGAGGCTAGACTGTGTAATGCTACAAGGGATAAAAA
1188845 AGAAGACCAA
66 AGAAGACCAA
1188855 CCTAGAACAATACAATAACGTAAACGAGATGAGGCTAGACTGTGTAATGCTACAAGGGATAAAAA
1 CCTAGAACAATACAATAACGTAAACGAGATGAGGCTAGACTGTGTAATGCTACAAGGGATAAAAA
1188920 AGAAGACCAA
66 AGAAGACCAA
1188930 C
1 C
1188931 GAGAGTTTTC
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 76 1.00
ACGTcount: A:0.46, C:0.17, G:0.21, T:0.16
Consensus pattern (75 bp):
CCTAGAACAATACAATAACGTAAACGAGATGAGGCTAGACTGTGTAATGCTACAAGGGATAAAAA
AGAAGACCAA
Found at i:1193083 original size:13 final size:13
Alignment explanation
Indices: 1193065--1193091 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1193055 TTATTTTCAA
1193065 CTTTTAATGAAGG
1 CTTTTAATGAAGG
1193078 CTTTTAATGAAGG
1 CTTTTAATGAAGG
1193091 C
1 C
1193092 ATGCATCGAT
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:0.30, C:0.11, G:0.22, T:0.37
Consensus pattern (13 bp):
CTTTTAATGAAGG
Found at i:1197789 original size:18 final size:18
Alignment explanation
Indices: 1197766--1197828 Score: 110
Period size: 18 Copynumber: 3.6 Consensus size: 18
1197756 ATACAAGTGC
1197766 GACTATTCTAAGACTTGT
1 GACTATTCTAAGACTTGT
1197784 GACTATTCTAAGACTTGT
1 GACTATTCTAAGACTTGT
*
1197802 GACTATTCTAAAACTTGT
1 GACTATTCTAAGACTTGT
1197820 G-CTATTCTA
1 GACTATTCTA
1197829 GATATAAAGA
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
17 8 0.18
18 36 0.82
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (18 bp):
GACTATTCTAAGACTTGT
Found at i:1199344 original size:44 final size:44
Alignment explanation
Indices: 1199261--1199434 Score: 147
Period size: 44 Copynumber: 4.0 Consensus size: 44
1199251 ATCACAAACA
* * * *
1199261 GGAGTCATCCAAA-AA-CATTTTACCCAGCTTAACCCCGTGAAGG
1 GGAGTCATCCAAAGAATC-CTTCACCTAGCTTAAACCCGTGAAGG
* * *
1199304 GGAGTCAACCAAAGAATCCTTCACCTAGCTTAAACTCGTGAAAG
1 GGAGTCATCCAAAGAATCCTTCACCTAGCTTAAACCCGTGAAGG
* * * * * * * *
1199348 GGACTCGTCTGAAA-AATCATTTCACTTGGCTTAAACCCATGAAGT
1 GGAGTCATC-CAAAGAATC-CTTCACCTAGCTTAAACCCGTGAAGG
* *
1199393 GGAGTCATCCAAAGAATCCTTCACCTGGCTTAAACCCATGAA
1 GGAGTCATCCAAAGAATCCTTCACCTAGCTTAAACCCGTGAA
1199435 AGGATGTCAT
Statistics
Matches: 103, Mismatches: 23, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
43 12 0.12
44 57 0.55
45 34 0.33
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (44 bp):
GGAGTCATCCAAAGAATCCTTCACCTAGCTTAAACCCGTGAAGG
Found at i:1199397 original size:89 final size:88
Alignment explanation
Indices: 1199287--1199576 Score: 275
Period size: 89 Copynumber: 3.3 Consensus size: 88
1199277 ATTTTACCCA
* * * * *
1199287 GCTTAACCCCGTGAAGGGGAGTCAACCAAAGAATCCTTCACCTAGCTTAAACTCGTGAAAGGGAC
1 GCTTAAACCCGTGAAGAGGAGTCATCCAAAGAATCCTTCACCTAGCTTAAAC-CATGAAAGGGAG
*
1199352 TCGTCTGAAAAATCATTTCACTTG
65 TCATCTGAAAAATCATTTCACTTG
* * *
1199376 GCTTAAACCCATGAAGTGGAGTCATCCAAAGAATCCTTCACCTGGCTTAAACCCATGAAA-GGAT
1 GCTTAAACCCGTGAAGAGGAGTCATCCAAAGAATCCTTCACCTAGCTTAAA-CCATGAAAGGGA-
* *
1199440 GTCATCTGAAGAATCATTTCAATTG
64 GTCATCTGAAAAATCATTTCACTTG
* * * ** * * *
1199465 GTTTAGACCCGTAAAGAAAAGCCATCCAAAGAATCATTTC-CCTAGCTTAAACCCT-AAAGAGGA
1 GCTTAAACCCGTGAAGAGGAGTCATCCAAAGAATC-CTTCACCTAGCTTAAACCATGAAAG-GGA
* *
1199528 GTCTTAT-AAAAAT-ATTTCACTTG
64 GTCATCTGAAAAATCATTTCACTTG
** * *
1199551 GCTTAATTCAGTGATGAGGAGTCATC
1 GCTTAAACCCGTGAAGAGGAGTCATC
1199577 TTTCAATCAA
Statistics
Matches: 161, Mismatches: 35, Indels: 13
0.77 0.17 0.06
Matches are distributed among these distances:
86 25 0.16
87 8 0.05
88 11 0.07
89 113 0.70
90 4 0.02
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (88 bp):
GCTTAAACCCGTGAAGAGGAGTCATCCAAAGAATCCTTCACCTAGCTTAAACCATGAAAGGGAGT
CATCTGAAAAATCATTTCACTTG
Found at i:1199444 original size:44 final size:44
Alignment explanation
Indices: 1199307--1199454 Score: 133
Period size: 44 Copynumber: 3.3 Consensus size: 44
1199297 GTGAAGGGGA
* * * *
1199307 GTCAACCAAAGAATCCTTCACCTAGCTTAAACTCGTGAAAGGGACT
1 GTCATCCAAAGAATCCTTCACCTGGCTTAAACCCATGAAA-GGA-T
* * * *
1199353 CGTC-T-GAAA-AATCATTTCACTTGGCTTAAACCCATGAAGTGGA-
1 -GTCATCCAAAGAATC-CTTCACCTGGCTTAAACCCATGAA-AGGAT
1199396 GTCATCCAAAGAATCCTTCACCTGGCTTAAACCCATGAAAGGAT
1 GTCATCCAAAGAATCCTTCACCTGGCTTAAACCCATGAAAGGAT
**
1199440 GTCATCTGAAGAATC
1 GTCATCCAAAGAATC
1199455 ATTTCAATTG
Statistics
Matches: 81, Mismatches: 14, Indels: 15
0.74 0.13 0.14
Matches are distributed among these distances:
42 3 0.04
43 4 0.05
44 42 0.52
45 29 0.36
47 3 0.04
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (44 bp):
GTCATCCAAAGAATCCTTCACCTGGCTTAAACCCATGAAAGGAT
Found at i:1200091 original size:37 final size:37
Alignment explanation
Indices: 1200033--1200108 Score: 98
Period size: 37 Copynumber: 2.1 Consensus size: 37
1200023 AGAACATTTC
* * * *
1200033 ACCTGGCTTAAACCCGCGAAGGGAATTCATCTGAAGA
1 ACCTGGCTTAAACCCACGAAGGGAAGTCAACCGAAGA
* *
1200070 ACCTGGCTTAAACTCATGAAGGGAAGTCAACCGAAGA
1 ACCTGGCTTAAACCCACGAAGGGAAGTCAACCGAAGA
1200107 AC
1 AC
1200109 ATTTCACATG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.36, C:0.24, G:0.24, T:0.17
Consensus pattern (37 bp):
ACCTGGCTTAAACCCACGAAGGGAAGTCAACCGAAGA
Found at i:1200401 original size:15 final size:15
Alignment explanation
Indices: 1200365--1200407 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
1200355 ATATGAGGGT
*
1200365 TATTATCATAT-TTG
1 TATTATAATATATTG
1200379 TATATATAATATATTG
1 TAT-TATAATATATTG
*
1200395 TATTATATTATAT
1 TATTATAATATAT
1200408 AATATAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 3 0.12
15 16 0.64
16 6 0.24
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (15 bp):
TATTATAATATATTG
Found at i:1200408 original size:17 final size:17
Alignment explanation
Indices: 1200365--1200408 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
1200355 ATATGAGGGT
1200365 TATTATCATATTTGTATA
1 TATTAT-ATATTTGTATA
*
1200383 TATAATATA-TTGTATTA
1 TATTATATATTTGTA-TA
1200400 TATTATATA
1 TATTATATA
1200409 ATATAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 5 0.22
17 13 0.57
18 5 0.22
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.55
Consensus pattern (17 bp):
TATTATATATTTGTATA
Found at i:1200508 original size:20 final size:22
Alignment explanation
Indices: 1200463--1200515 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
1200453 ATATATGTAT
1200463 ATATAATATAATTTTTGAAAAC
1 ATATAATATAATTTTTGAAAAC
* *
1200485 ATATTATATAATTTTTGAAAAT
1 ATATAATATAATTTTTGAAAAC
*
1200507 ATACAATAT
1 ATATAATAT
1200516 TATATATATA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (22 bp):
ATATAATATAATTTTTGAAAAC
Found at i:1200663 original size:18 final size:18
Alignment explanation
Indices: 1200640--1200676 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1200630 CAAATCAAAG
1200640 ATGTAAAATATAATATAT
1 ATGTAAAATATAATATAT
* *
1200658 ATGTAACATGTAATATAT
1 ATGTAAAATATAATATAT
1200676 A
1 A
1200677 ATATATATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.03, G:0.08, T:0.38
Consensus pattern (18 bp):
ATGTAAAATATAATATAT
Found at i:1200678 original size:7 final size:7
Alignment explanation
Indices: 1200668--1200701 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
1200658 ATGTAACATG
1200668 TAATATA
1 TAATATA
1200675 TAATATA
1 TAATATA
*
1200682 TATTATA
1 TAATATA
*
1200689 TATTATA
1 TAATATA
1200696 TAATAT
1 TAATAT
1200702 TTAAAAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (7 bp):
TAATATA
Found at i:1201134 original size:8 final size:8
Alignment explanation
Indices: 1201121--1201151 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
1201111 CCCGGTTGAC
*
1201121 CCGACCCG
1 CCGACCCA
1201129 CCGACCCA
1 CCGACCCA
1201137 CCGACCCA
1 CCGACCCA
1201145 CCGACCC
1 CCGACCC
1201152 GGATCTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.19, C:0.65, G:0.16, T:0.00
Consensus pattern (8 bp):
CCGACCCA
Found at i:1201497 original size:15 final size:15
Alignment explanation
Indices: 1201477--1201533 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
1201467 AACCGGATAT
*
1201477 CGGGTATCCGATTAC
1 CGGGTACCCGATTAC
**
1201492 CGGGTACCCGTAAAATC
1 CGGGTACCCG-ATTA-C
1201509 CGGGTACCCGATTAC
1 CGGGTACCCGATTAC
*
1201524 CGGATACCCG
1 CGGGTACCCG
1201534 TAACATCCAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
15 19 0.56
16 4 0.12
17 11 0.32
ACGTcount: A:0.23, C:0.32, G:0.26, T:0.19
Consensus pattern (15 bp):
CGGGTACCCGATTAC
Found at i:1201520 original size:32 final size:32
Alignment explanation
Indices: 1201477--1201541 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
1201467 AACCGGATAT
* *
1201477 CGGGTATCCGATTACCGGGTACCCGTAAAATC
1 CGGGTACCCGATTACCGGATACCCGTAAAATC
*
1201509 CGGGTACCCGATTACCGGATACCCGTAACATC
1 CGGGTACCCGATTACCGGATACCCGTAAAATC
1201541 C
1 C
1201542 AAGTCAGGAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.25, C:0.32, G:0.23, T:0.20
Consensus pattern (32 bp):
CGGGTACCCGATTACCGGATACCCGTAAAATC
Found at i:1207115 original size:41 final size:41
Alignment explanation
Indices: 1207070--1207168 Score: 117
Period size: 41 Copynumber: 2.4 Consensus size: 41
1207060 ACCATATGCT
* * * * **
1207070 TGGTATCGATACCGATGGGCTAGTATCCATACTGGATAAAC
1 TGGTATCAATACCGAAGGGCAAGTATACATACCAGATAAAC
* * *
1207111 TGGTATCCATACCGAAGGGCAAGTATACATACCAGATGAAT
1 TGGTATCAATACCGAAGGGCAAGTATACATACCAGATAAAC
1207152 TGGTATCAATACCGAAG
1 TGGTATCAATACCGAAG
1207169 ATTGTGTATC
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.24
Consensus pattern (41 bp):
TGGTATCAATACCGAAGGGCAAGTATACATACCAGATAAAC
Found at i:1207183 original size:20 final size:19
Alignment explanation
Indices: 1207150--1207202 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
1207140 TACCAGATGA
1207150 ATTGGTATCAATACCGAAG
1 ATTGGTATCAATACCGAAG
*
1207169 ATTGTGTATCCATACCGAAGG
1 ATTG-GTATCAATACCGAA-G
* *
1207190 CTTAGTATCAATA
1 ATTGGTATCAATA
1207203 TCCAAAGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 4 0.14
20 21 0.75
21 3 0.11
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (19 bp):
ATTGGTATCAATACCGAAG
Found at i:1207341 original size:28 final size:29
Alignment explanation
Indices: 1207298--1207353 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 29
1207288 AGTGTGAAAG
*
1207298 ATTACTAAAATGCCCTTAGAGGG-CTAAA
1 ATTACTAAAATACCCTTAGAGGGTCTAAA
* *
1207326 ATTACTAAATTACCCTTATAGGGTCTAA
1 ATTACTAAAATACCCTTAGAGGGTCTAA
1207354 GTGAATGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 20 0.83
29 4 0.17
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (29 bp):
ATTACTAAAATACCCTTAGAGGGTCTAAA
Found at i:1209078 original size:32 final size:31
Alignment explanation
Indices: 1209025--1209089 Score: 76
Period size: 32 Copynumber: 2.1 Consensus size: 31
1209015 ATCCGAACTT
* *
1209025 GATTTAACTCAAAATTTTATATCATTCATCC
1 GATTTAACTCAAAATTATATATCATCCATCC
* * *
1209056 GATTTGACTCGAAATATATATATCCTCCATCC
1 GATTTAACTCAAAAT-TATATATCATCCATCC
1209088 GA
1 GA
1209090 ATTCGATCTG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
31 13 0.46
32 15 0.54
ACGTcount: A:0.34, C:0.22, G:0.08, T:0.37
Consensus pattern (31 bp):
GATTTAACTCAAAATTATATATCATCCATCC
Found at i:1209677 original size:2 final size:2
Alignment explanation
Indices: 1209670--1209764 Score: 174
Period size: 2 Copynumber: 48.0 Consensus size: 2
1209660 ACCTTATTTA
1209670 AT AT AT AT AT AT 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 AT AT AT AT AT AT
*
1209712 AT AT AT -T AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1209753 AT AT AT AT AT AT
1 AT AT AT AT AT AT
1209765 TAGATAGAGA
Statistics
Matches: 90, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
1 1 0.01
2 89 0.99
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (2 bp):
AT
Found at i:1213378 original size:21 final size:22
Alignment explanation
Indices: 1213354--1213399 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
1213344 GGATAATAAT
*
1213354 AAAAGTAATAGAA-ATAG-AAAG
1 AAAAGAAATA-AAGATAGAAAAG
1213375 AAAAGAAATAAAGATAGAAAAG
1 AAAAGAAATAAAGATAGAAAAG
1213397 AAA
1 AAA
1213400 TGGTTGCAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 2 0.09
21 13 0.59
22 7 0.32
ACGTcount: A:0.72, C:0.00, G:0.17, T:0.11
Consensus pattern (22 bp):
AAAAGAAATAAAGATAGAAAAG
Found at i:1213459 original size:12 final size:12
Alignment explanation
Indices: 1213418--1213460 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
1213408 GAAGTATGAA
*
1213418 GTTGGTGATGGT
1 GTTGATGATGGT
* *
1213430 CTTGATGAAGGAT
1 GTTGATGATGG-T
1213443 GTTGATGATGGT
1 GTTGATGATGGT
1213455 GTTGAT
1 GTTGAT
1213461 ATTGAAATGG
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
12 15 0.60
13 10 0.40
ACGTcount: A:0.19, C:0.02, G:0.40, T:0.40
Consensus pattern (12 bp):
GTTGATGATGGT
Found at i:1215879 original size:20 final size:23
Alignment explanation
Indices: 1215822--1215879 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 23
1215812 GCATGGGTAG
*
1215822 TGCATCGATGCACATGTTAAGGGA
1 TGCATCGATGCAC-TGTTAAGGAA
* *
1215846 TGCATCTATACACTG-T-A-GAA
1 TGCATCGATGCACTGTTAAGGAA
1215866 TGCATCGATGCACT
1 TGCATCGATGCACT
1215880 TCAAGGGAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
20 14 0.48
21 1 0.03
22 1 0.03
23 2 0.07
24 11 0.38
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (23 bp):
TGCATCGATGCACTGTTAAGGAA
Found at i:1216747 original size:31 final size:31
Alignment explanation
Indices: 1216685--1216749 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
1216675 AGGGTCGAGG
*
1216685 GTTTACCTATGTCTTTCGAGACATATAGACA
1 GTTTACCTAGGTCTTTCGAGACATATAGACA
* * *
1216716 GTTTACCTAGGT-TCTTCGGGACCTATGGACA
1 GTTTACCTAGGTCT-TTCGAGACATATAGACA
1216747 GTT
1 GTT
1216750 GTCGAGGTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 1 0.03
31 28 0.97
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (31 bp):
GTTTACCTAGGTCTTTCGAGACATATAGACA
Found at i:1216805 original size:30 final size:30
Alignment explanation
Indices: 1216724--1216807 Score: 114
Period size: 30 Copynumber: 2.8 Consensus size: 30
1216714 CAGTTTACCT
* * *
1216724 AGGTTCTTCGGGACCTATGGACAGTTGTCG
1 AGGTTCTTTGTGACCTATGGATAGTTGTCG
* *
1216754 AGGTTCTTTATGACCTCTGGATAGTTGTCG
1 AGGTTCTTTGTGACCTATGGATAGTTGTCG
*
1216784 GGGTTCTTTGTGACCTATGGATAG
1 AGGTTCTTTGTGACCTATGGATAG
1216808 GTCTTTCGGG
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.17, C:0.17, G:0.31, T:0.36
Consensus pattern (30 bp):
AGGTTCTTTGTGACCTATGGATAGTTGTCG
Found at i:1220104 original size:25 final size:24
Alignment explanation
Indices: 1220065--1220114 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 24
1220055 GATGGCTGCG
*
1220065 GAAGAAGTTGGTGATGGTCTTGAT
1 GAAGAAGTTGATGATGGTCTTGAT
*
1220089 GAAGAATGTTGATGATGGTGTTGAT
1 GAAGAA-GTTGATGATGGTCTTGAT
1220114 G
1 G
1220115 TTGAAATGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 6 0.26
25 17 0.74
ACGTcount: A:0.26, C:0.02, G:0.38, T:0.34
Consensus pattern (24 bp):
GAAGAAGTTGATGATGGTCTTGAT
Found at i:1221580 original size:13 final size:13
Alignment explanation
Indices: 1221562--1221588 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1221552 CATAGTTGAA
1221562 CAGTCTTCATATG
1 CAGTCTTCATATG
1221575 CAGTCTTCATATG
1 CAGTCTTCATATG
1221588 C
1 C
1221589 GCGTCTGTAA
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:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (13 bp):
CAGTCTTCATATG
Found at i:1229744 original size:205 final size:202
Alignment explanation
Indices: 1229340--1229752 Score: 713
Period size: 205 Copynumber: 2.0 Consensus size: 202
1229330 CGGCTCCAAA
1229340 TCATCCCCAACGGTTATAAACGGCCACGATTTCATTCAATATATAAATACAAGTTCAAGACATTG
1 TCATCCCCAACGGTTATAAACGGCCACGATTTCATTCAATATATAAATACAAGTTCAAGACATTG
1229405 AAGAAGGGTTAGAACACATATCCAAGCAATCAAACACAAGAGAAGAGTTTTTCATTCCATTTTAT
66 AAGAAGGGTTAGAACACATATCCAAGCAATCAAACACAAGAGAAGAGTTTTTCATTCCATTTTAT
1229470 TTTCTCTTGTAAATATTTTGTTTGTGAGCTTATTTTGTAACACTCTACCTTTAAAAGGTTTTATT
131 TTTCTCTTGTAAATATTTTGTTTGTGAGCTTATTTTGTAACACTCTACCTTTAAAAGG--TTATT
1229535 TATTTATTT
194 TATTTATTT
1229544 TCATCCCCAAC-GTTATAAACGGCCACGATTTCATTCCAATATATAAATACAAGTTCAAGACACT
1 TCATCCCCAACGGTTATAAACGGCCACGATTTCATT-CAATATATAAATACAAGTTCAAGACA-T
1229608 TGAAGAAGGGTTAGAACACATATCCAAGCAATCAAACACAAGAGAAGAGTTTTTCATTCCCATTT
64 TGAAGAAGGGTTAGAACACATATCCAAGCAATCAAACACAAGAGAAGAGTTTTTCATT-CCATTT
1229673 TATTTTCTCTTGTAAATA-TTTGTTCATGTGAGCTTTATTTTGTAAACACTCTACCTTTAAAAGG
128 TATTTTCTCTTGTAAATATTTTGTT--TGTGAGC-TTATTTTGT-AACACTCTACCTTTAAAAGG
1229737 TTTTATTTATTTATTT
189 --TTATTTATTTATTT
1229753 CTTTTTACCT
Statistics
Matches: 202, Mismatches: 0, Indels: 9
0.96 0.00 0.04
Matches are distributed among these distances:
203 24 0.12
204 37 0.18
205 65 0.32
206 24 0.12
207 7 0.03
208 9 0.04
209 36 0.18
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.37
Consensus pattern (202 bp):
TCATCCCCAACGGTTATAAACGGCCACGATTTCATTCAATATATAAATACAAGTTCAAGACATTG
AAGAAGGGTTAGAACACATATCCAAGCAATCAAACACAAGAGAAGAGTTTTTCATTCCATTTTAT
TTTCTCTTGTAAATATTTTGTTTGTGAGCTTATTTTGTAACACTCTACCTTTAAAAGGTTATTTA
TTTATTT
Found at i:1230720 original size:21 final size:22
Alignment explanation
Indices: 1230696--1230738 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
1230686 ATTCTAAATG
*
1230696 ACCAAATATGTGTT-CCAAAGA
1 ACCAAATATATGTTCCCAAAGA
*
1230717 ACCACATATATGTTCCCAAAGA
1 ACCAAATATATGTTCCCAAAGA
1230739 TTACATATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.42, C:0.23, G:0.12, T:0.23
Consensus pattern (22 bp):
ACCAAATATATGTTCCCAAAGA
Found at i:1232499 original size:40 final size:40
Alignment explanation
Indices: 1232431--1232506 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
1232421 TTTCTCGACA
* *
1232431 AGAAGTACCGATATTGTTCTTACAGTATCGATACCTCATG
1 AGAAATACCGATATTGTTCATACAGTATCGATACCTCATG
**
1232471 AGAAATACCGATATTGTTCATATGGTATCGATACCT
1 AGAAATACCGATATTGTTCATACAGTATCGATACCT
1232507 TAGGTAAGGG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (40 bp):
AGAAATACCGATATTGTTCATACAGTATCGATACCTCATG
Found at i:1236985 original size:44 final size:45
Alignment explanation
Indices: 1236893--1237154 Score: 350
Period size: 44 Copynumber: 5.9 Consensus size: 45
1236883 TATAAAATAT
* *
1236893 TTTTCTGTTGATAATGCACCCATATGCATTTCAATTATAGTATAC
1 TTTTCTGTTGATAATGCACCCATATACATTTCAACTATAGTATAC
* *
1236938 TTTTCTGTTGATAATGCACCCATATGCA-TTCAACTATCGTATAC
1 TTTTCTGTTGATAATGCACCCATATACATTTCAACTATAGTATAC
* *
1236982 TTTTATGTTGATAATGTA-CCATATACATTTCAACTATAGTATAC
1 TTTTCTGTTGATAATGCACCCATATACATTTCAACTATAGTATAC
* * * *
1237026 TTTTCAGTTGATAATGTACCCATATACATTTC-ACTCTAGCATAC
1 TTTTCTGTTGATAATGCACCCATATACATTTCAACTATAGTATAC
* * * *
1237070 TTTTCTGTTGACAATGCACCCATATGCATTTCAACTATTGTATAT
1 TTTTCTGTTGATAATGCACCCATATACATTTCAACTATAGTATAC
* *
1237115 TTTTATGTTGATAATGTACCCATATACATTTCAACGTATA
1 TTTTCTGTTGATAATGCACCCATATACATTTCAAC-TATA
1237155 CTTTCGTTGA
Statistics
Matches: 190, Mismatches: 23, Indels: 7
0.86 0.10 0.03
Matches are distributed among these distances:
43 8 0.04
44 99 0.52
45 80 0.42
46 3 0.02
ACGTcount: A:0.30, C:0.19, G:0.10, T:0.41
Consensus pattern (45 bp):
TTTTCTGTTGATAATGCACCCATATACATTTCAACTATAGTATAC
Found at i:1237641 original size:20 final size:20
Alignment explanation
Indices: 1237615--1237670 Score: 67
Period size: 22 Copynumber: 2.7 Consensus size: 20
1237605 CTGGCCCTTC
1237615 AGTATCGATACCCCAACTAT
1 AGTATCGATACCCCAACTAT
* * *
1237635 GGTATCGATACTACTCTACTAT
1 AGTATCGATAC--CCCAACTAT
1237657 AGTATCGATACCCC
1 AGTATCGATACCCC
1237671 CTACCAGTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
20 12 0.41
22 17 0.59
ACGTcount: A:0.30, C:0.29, G:0.12, T:0.29
Consensus pattern (20 bp):
AGTATCGATACCCCAACTAT
Found at i:1237749 original size:94 final size:95
Alignment explanation
Indices: 1237616--1237838 Score: 258
Period size: 94 Copynumber: 2.4 Consensus size: 95
1237606 TGGCCCTTCA
* * * *
1237616 GTATCGATACCCCAACTATGGTATCGATACTACTCTACTATAGTATCGATACCCCCTACCA-G-T
1 GTATCGATACCCCAACCATGGTATCGATACCACTATACTATAGTACCGATA-CCCCTA-CATGAT
**
1237679 ATCAATACCAAAATTAGATTCGATG-TGGCC-
64 ATCAATACCAAAATTAGATTCGATGTTACCCG
** * * *
1237709 GTATCGATACCCTTACCATAGGTATCAATACCACTATACTATGGTACCGATACCCCTATATGATA
1 GTATCGATACCCCAACCAT-GGTATCGATACCACTATACTATAGTACCGATACCCCTACATGATA
* *
1237774 TCGATACCAAAATTAGGTTCGATGTTACCCG
65 TCAATACCAAAATTAGATTCGATGTTACCCG
1237805 GTATCGATACCCGC-ACCATGGTATCGATACCACT
1 GTATCGATACCC-CAACCATGGTATCGATACCACT
1237839 TCATTAGGTA
Statistics
Matches: 109, Mismatches: 15, Indels: 10
0.81 0.11 0.07
Matches are distributed among these distances:
92 1 0.01
93 23 0.21
94 51 0.47
95 17 0.16
96 17 0.16
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (95 bp):
GTATCGATACCCCAACCATGGTATCGATACCACTATACTATAGTACCGATACCCCTACATGATAT
CAATACCAAAATTAGATTCGATGTTACCCG
Found at i:1241624 original size:3 final size:3
Alignment explanation
Indices: 1241616--1241671 Score: 89
Period size: 3 Copynumber: 19.0 Consensus size: 3
1241606 TATTTTTTGT
1241616 TTA TTA TTA TTA TTA -TA TTA TTA TTTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
1241661 TTA TT- TTA TTA
1 TTA TTA TTA TTA
1241672 CAAATAAATA
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
2 4 0.08
3 43 0.86
4 3 0.06
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:1243752 original size:197 final size:200
Alignment explanation
Indices: 1243417--1243824 Score: 745
Period size: 197 Copynumber: 2.1 Consensus size: 200
1243407 GCGACTCCCA
*
1243417 AATTATTTTCAAACCATTTATTCACATCAATTTTCCCGCCAAGTATAATATTTCGTGCCGGACGA
1 AATTATTTTCAAAACATTTATTCACATCAATTTTCCCGCCAAGTATAATATTTCGTGCCGGACGA
1243482 AAATCGGTTACGACAGCTTGGCGACTCCGCTAGGGACTGGTCAACTTTTAAAAATCAATTATAAA
66 AAATCGGTTACGACAGCTTGGCGACTCCGCTAGGGACTGGTCAACTTTTAAAAATCAATTATAAA
1243547 TTGTCTCTATTAATTATAAATTAAAATTTATATATTTAA-TT-TGA-TTTTCCTTTTCAAATTTT
131 TTGTCTCTATTAATTATAAATTAAAATTTATATATTTAATTTATGATTTTTCCTTTTCAAATTTT
1243609 TATAT
196 TATAT
1243614 AATTATTTTCAAAACATTTATTCACATCAATTTTCCCGCCAAGTATAA-ATTTCGTGCCCGGACG
1 AATTATTTTCAAAACATTTATTCACATCAATTTTCCCGCCAAGTATAATATTTCGTG-CCGGACG
1243678 AAAATCGGTTACGACAGCTTGGCGACTCCGCTAGGGACTGGTCAAACTTTT-AAAATCAATTATA
65 AAAATCGGTTACGACAGCTTGGCGACTCCGCTAGGGACTGGTC-AACTTTTAAAAATCAATTATA
1243742 AATTGTCTCTATTAATTATAAATTAAAATTTATATATTTAATTTATGATTTTTCCTTTTCAAATT
129 AATTGTCTCTATTAATTATAAATTAAAATTTATATATTTAATTTATGATTTTTCCTTTTCAAATT
1243807 TTTATAT
194 TTTATAT
*
1243814 ATTTATTTTCA
1 AATTATTTTCA
1243825 TAGTATATTA
Statistics
Matches: 204, Mismatches: 2, Indels: 7
0.96 0.01 0.03
Matches are distributed among these distances:
196 8 0.04
197 151 0.74
198 9 0.04
199 3 0.01
200 33 0.16
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.40
Consensus pattern (200 bp):
AATTATTTTCAAAACATTTATTCACATCAATTTTCCCGCCAAGTATAATATTTCGTGCCGGACGA
AAATCGGTTACGACAGCTTGGCGACTCCGCTAGGGACTGGTCAACTTTTAAAAATCAATTATAAA
TTGTCTCTATTAATTATAAATTAAAATTTATATATTTAATTTATGATTTTTCCTTTTCAAATTTT
TATAT
Found at i:1243837 original size:16 final size:16
Alignment explanation
Indices: 1243811--1243849 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
1243801 CAAATTTTTA
1243811 TATATTTATTTTCATAG
1 TATA-TTATTTTCATAG
* *
1243828 TATATTATTTTCTTAT
1 TATATTATTTTCATAG
1243844 TATATT
1 TATATT
1243850 TCATTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.64
Consensus pattern (16 bp):
TATATTATTTTCATAG
Found at i:1245183 original size:25 final size:26
Alignment explanation
Indices: 1245155--1245207 Score: 81
Period size: 25 Copynumber: 2.0 Consensus size: 26
1245145 TTTGCATTTG
*
1245155 TACATTTTTACGTTTG-TATTTACAT
1 TACATTTTTACATTTGATATTTACAT
1245180 TACATTTTTACATTTGCATATTTACAT
1 TACATTTTTACATTTG-ATATTTACAT
1245207 T
1 T
1245208 GGCATCTTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 15 0.60
27 10 0.40
ACGTcount: A:0.26, C:0.13, G:0.06, T:0.55
Consensus pattern (26 bp):
TACATTTTTACATTTGATATTTACAT
Found at i:1245205 original size:14 final size:14
Alignment explanation
Indices: 1245171--1245222 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 14
1245161 TTTACGTTTG
*
1245171 TATTTACA-TTACA
1 TATTTACATTTGCA
*
1245184 TTTTTACATTTGCA
1 TATTTACATTTGCA
*
1245198 TATTTACATTGGCA
1 TATTTACATTTGCA
* *
1245212 TCTTTGCATTT
1 TATTTACATTT
1245223 TTATGTCATA
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
13 7 0.23
14 24 0.77
ACGTcount: A:0.25, C:0.15, G:0.08, T:0.52
Consensus pattern (14 bp):
TATTTACATTTGCA
Found at i:1248379 original size:1 final size:1
Alignment explanation
Indices: 1248363--1248428 Score: 51
Period size: 1 Copynumber: 66.0 Consensus size: 1
1248353 CAAAGAAAGG
* * * * * * * * *
1248363 AAAAAAGAAAACAAAAATAAAAAAACAAAAAACAAAACAAAACAAAAAAAAAGAAAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1248428 A
1 A
1248429 TTGAATCAAG
Statistics
Matches: 47, Mismatches: 18, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.86, C:0.08, G:0.05, T:0.02
Consensus pattern (1 bp):
A
Found at i:1248425 original size:26 final size:26
Alignment explanation
Indices: 1248363--1248425 Score: 85
Period size: 26 Copynumber: 2.4 Consensus size: 26
1248353 CAAAGAAAGG
1248363 AAAAAAGAAAACAAAAATAAAAAAAC
1 AAAAAAGAAAACAAAAATAAAAAAAC
*
1248389 AAAAAACAAAACAAAACA-AAAAAAA-
1 AAAAAAGAAAACAAAA-ATAAAAAAAC
1248414 AGAAAAAGAAAA
1 A-AAAAAGAAAA
1248426 AAATTGAATC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
25 1 0.03
26 31 0.94
27 1 0.03
ACGTcount: A:0.86, C:0.08, G:0.05, T:0.02
Consensus pattern (26 bp):
AAAAAAGAAAACAAAAATAAAAAAAC
Found at i:1249596 original size:23 final size:23
Alignment explanation
Indices: 1249566--1249612 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
1249556 TTACATCATA
1249566 GAACCATGAACAAGTCACTACCT
1 GAACCATGAACAAGTCACTACCT
1249589 GAACCATGAACAAGTCACTACCT
1 GAACCATGAACAAGTCACTACCT
1249612 G
1 G
1249613 CACTTGTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.30, G:0.15, T:0.17
Consensus pattern (23 bp):
GAACCATGAACAAGTCACTACCT
Found at i:1253304 original size:21 final size:22
Alignment explanation
Indices: 1253253--1253306 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
1253243 ATCTACACTC
* *
1253253 TTCAAAGATGATAGATTCCCTT
1 TTCAAAGATGACAAATTCCCTT
* *
1253275 TTTAAAGATGACAAATTCTC-T
1 TTCAAAGATGACAAATTCCCTT
1253296 TTCAAAGATGA
1 TTCAAAGATGA
1253307 AAGCTTTATC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 11 0.41
22 16 0.59
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (22 bp):
TTCAAAGATGACAAATTCCCTT
Found at i:1254015 original size:113 final size:113
Alignment explanation
Indices: 1253715--1254792 Score: 1295
Period size: 113 Copynumber: 9.7 Consensus size: 113
1253705 CCATCATTCA
*
1253715 ATGGATCAACATT-TCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
1 ATGGATCAACATTACCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
* * *
1253778 TCATAATAAGAAGAACTTGTTCAACTTTTCGCTTGAA-TCATCATTTG
66 TCATAATGAGAAGAACTTGTTCAACTTTTTGCTTGAATTCATCACTTG
*
1253825 ATGGATCAACATTATCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
1 ATGGATCAACATTACCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
* * *
1253890 TCATAATAAGAAGAACTTGTTCAACTTTTTGCTTGAATTTATCATTTG
66 TCATAATGAGAAGAACTTGTTCAACTTTTTGCTTGAATTCATCACTTG
* *
1253938 ATGGATCAACATTACCAG-GTCAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGGAG
1 ATGGATCAACATTACCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAG
* * *
1254002 TTCATAATAAGAAGAACTTGTTCAACTTTTTGCTTGAATTTATCATTTG
65 TTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTGAATTCATCACTTG
* *
1254051 ATGGATCAACATTACTAG-GTCAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAG
1 ATGGATCAACATTACCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAG
* * *
1254115 TTCATAATGAGAAGAATTTGTTCAACTTTTTGTTTGAATTCATCACTCG
65 TTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTGAATTCATCACTTG
* * *
1254164 ATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAAGT
1 ATGGATCAACATTACCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
* * *
1254228 TCATAATGAGAAGAACTTGTTCGAC-TTTAG--T---TTGAT--C--G
66 TCATAATGAGAAGAACTTGTTCAACTTTTTGCTTGAATTCATCACTTG
*
1254266 ATGGATCAACATTACCAG-GTCAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAG
1 ATGGATCAACATTACCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAG
** *
1254330 TTCATAATGAGAAGAACTTGTTCAACTTTTTGCTCAAATCCATCACTTG
65 TTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTGAATTCATCACTTG
*** * *
1254379 ATGGATCAGTTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
1 ATGGATCAACATTACCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
* * *
1254444 TCATAATGAGAAGAATTTGTTCAACTTTTTGTTTGAATTCATCACTCG
66 TCATAATGAGAAGAACTTGTTCAACTTTTTGCTTGAATTCATCACTTG
* * *
1254492 ATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAAGT
1 ATGGATCAACATTACCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
* * *
1254556 TCATAATGAGAAGAACTTGTTCGAC-TTTAG--T---TTGAT--C--G
66 TCATAATGAGAAGAACTTGTTCAACTTTTTGCTTGAATTCATCACTTG
* * * *
1254594 ATGGATCAACATTTCC--AGAAAGTTCATAATAAGAAGAACTTATCTAAAG-AGGAAGAAGAAGT
1 ATGGATCAACATTACCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
* * * * *
1254656 TCATAATGAGAAGAGCTTGTTCAACCTTTTGCATG-ACTCTATCACAGAAGGAGATAG
66 TCATAATGAGAAGAACTTGTTCAACTTTTTGCTTGAATTC-ATCAC---------TTG
* * * *
1254713 ATCAGCATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAA
1 AT--GGATCAACATTACCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
1254777 GTTCATAATGAGAAGA
64 GTTCATAATGAGAAGA
1254793 GCTTATTTAA
Statistics
Matches: 864, Mismatches: 63, Indels: 69
0.87 0.06 0.07
Matches are distributed among these distances:
100 67 0.08
101 5 0.01
102 62 0.07
103 38 0.04
104 6 0.01
105 1 0.00
106 10 0.01
108 1 0.00
109 5 0.01
110 13 0.02
111 15 0.02
112 152 0.18
113 414 0.48
114 2 0.00
119 3 0.00
121 12 0.01
123 58 0.07
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (113 bp):
ATGGATCAACATTACCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
TCATAATGAGAAGAACTTGTTCAACTTTTTGCTTGAATTCATCACTTG
Found at i:1254249 original size:20 final size:20
Alignment explanation
Indices: 1254187--1254249 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
1254177 TCCAGAGAAA
1254187 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
* ***
1254207 -ATC-TGAA-GAGGAAGAAGAA
1 GTTCAT-AATGA-GAAGAACTT
1254226 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
1254246 GTTC
1 GTTC
1254250 GACTTTAGTT
Statistics
Matches: 30, Mismatches: 8, Indels: 10
0.62 0.17 0.21
Matches are distributed among these distances:
18 3 0.10
19 10 0.33
20 14 0.47
21 3 0.10
ACGTcount: A:0.41, C:0.10, G:0.24, T:0.25
Consensus pattern (20 bp):
GTTCATAATGAGAAGAACTT
Found at i:1254382 original size:328 final size:325
Alignment explanation
Indices: 1253699--1254792 Score: 1484
Period size: 328 Copynumber: 3.3 Consensus size: 325
1253689 TTTAGCAAGT
*
1253699 TCAAATCCATCATTCAATGGATCAACATTTCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAG
1 TCAAATCCATCATT-GATGGATCAACATTTCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAG
* * * * * *
1253764 AAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACTTTTCGCTTGAA-TCATCATTTGATG
65 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTTGTTTGAATTCATCACTCGATG
* *
1253828 GATCAACATTAT-CAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTC
130 GATCAAC-TTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAAGTTC
* * * *
1253892 ATAATAAGAAGAACTTGTTCAACTTTTTGCTTGAATTTATCATTTGATGGATCAACATTACCAGG
193 ATAATGAGAAGAACTTGTTCGAC-TTTAG--T---TTGATC----GATGGATCAACATTACCAGG
* *
1253957 TCAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGGAGTTCATAATAAGAAGAACTTG
248 TCAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTG
1254022 TTCAACTTTTTGC
313 TTCAACTTTTTGC
** ** *
1254035 TTGAATTTATCATTTGATGGATCAACATTACTAG-GTCAAGTTCATAATGAGAAGAACTCATCTG
1 TCAAATCCATCA-TTGATGGATCAACATTTC-AGAG--AAGTTCATAATGAGAAGAACTCATCTG
1254099 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTTGTTTGAATTCATCACTCG
62 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTTGTTTGAATTCATCACTCG
1254164 ATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTT
127 ATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTT
1254229 CATAATGAGAAGAACTTGTTCGACTTTAGTTTGATCGATGGATCAACATTACCAGGTCAAGTTCA
192 CATAATGAGAAGAACTTGTTCGACTTTAGTTTGATCGATGGATCAACATTACCAGGTCAAGTTCA
1254294 TAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTT
257 TAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTT
1254359 TTGC
322 TTGC
***
1254363 TCAAATCCATCACTTGATGGATCAGTTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCA-TTGATGGATCAACATTT-CAGAG-AAGTTCATAATGAGAAGAACTCATCTGA
*
1254428 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACTTTTTGTTTGAATTCATCACTCGA
63 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTTGTTTGAATTCATCACTCGA
1254493 TGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTC
128 TGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTC
* *
1254558 ATAATGAGAAGAACTTGTTCGACTTTAGTTTGATCGATGGATCAACATTTCCA-G-AAAGTTCAT
193 ATAATGAGAAGAACTTGTTCGACTTTAGTTTGATCGATGGATCAACATTACCAGGTCAAGTTCAT
* * * *
1254621 AATAAGAAGAACTTATCTAAAG-AGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTT
258 AATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTT
1254685 TGCATGAC
322 T---TG-C
* ** * * *
1254693 TC-TATCACAGAAGGAGATAGATCAGCATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACT
1 TCAAATC-C---A--TCATTGAT--GGATCAACATTT-CAGAG-AAGTTCATAATGAGAAGAACT
*
1254757 TATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGA
56 CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
1254793 GCTTATTTAA
Statistics
Matches: 691, Mismatches: 46, Indels: 43
0.89 0.06 0.06
Matches are distributed among these distances:
325 36 0.05
326 32 0.05
327 1 0.00
328 328 0.47
329 7 0.01
330 4 0.01
332 5 0.01
333 1 0.00
334 4 0.01
335 28 0.04
336 68 0.10
337 8 0.01
338 116 0.17
339 53 0.08
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (325 bp):
TCAAATCCATCATTGATGGATCAACATTTCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGA
AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTTGTTTGAATTCATCACTCGATGG
ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATA
ATGAGAAGAACTTGTTCGACTTTAGTTTGATCGATGGATCAACATTACCAGGTCAAGTTCATAAT
GAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGC
Found at i:1254577 original size:20 final size:20
Alignment explanation
Indices: 1254515--1254577 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
1254505 TCCAGAGAAA
1254515 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
* ***
1254535 -ATC-TGAA-GAGGAAGAAGAA
1 GTTCAT-AATGA-GAAGAACTT
1254554 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
1254574 GTTC
1 GTTC
1254578 GACTTTAGTT
Statistics
Matches: 30, Mismatches: 8, Indels: 10
0.62 0.17 0.21
Matches are distributed among these distances:
18 3 0.10
19 10 0.33
20 14 0.47
21 3 0.10
ACGTcount: A:0.41, C:0.10, G:0.24, T:0.25
Consensus pattern (20 bp):
GTTCATAATGAGAAGAACTT
Found at i:1254614 original size:100 final size:101
Alignment explanation
Indices: 1254489--1254677 Score: 326
Period size: 100 Copynumber: 1.9 Consensus size: 101
1254479 AATTCATCAC
* * *
1254489 TCGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAA
1 TCGATGGATCAACATTTCCA-AGAAAGTTCATAATAAGAAGAACTTATCTAAAGAGGAAGAAGAA
1254554 GTTCATAATGAGAAGAACTTGTTCGACTTTAGTTTGA
65 GTTCATAATGAGAAGAACTTGTTCGACTTTAGTTTGA
1254591 TCGATGGATCAACATTTCC-AGAAAGTTCATAATAAGAAGAACTTATCTAAAGAGGAAGAAGAAG
1 TCGATGGATCAACATTTCCAAGAAAGTTCATAATAAGAAGAACTTATCTAAAGAGGAAGAAGAAG
*
1254655 TTCATAATGAGAAGAGCTTGTTC
66 TTCATAATGAGAAGAACTTGTTC
1254678 AACCTTTTGC
Statistics
Matches: 83, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
100 65 0.78
102 18 0.22
ACGTcount: A:0.39, C:0.12, G:0.22, T:0.27
Consensus pattern (101 bp):
TCGATGGATCAACATTTCCAAGAAAGTTCATAATAAGAAGAACTTATCTAAAGAGGAAGAAGAAG
TTCATAATGAGAAGAACTTGTTCGACTTTAGTTTGA
Found at i:1254899 original size:123 final size:122
Alignment explanation
Indices: 1254610--1254889 Score: 386
Period size: 123 Copynumber: 2.3 Consensus size: 122
1254600 CAACATTTCC
* * *
1254610 AGAAAGTTCATAATAAGAAGAACTTATCTAAAGAGGAAGAAGAAGTTCATAATGAGAAGAGCTTG
1 AGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAGCTTA
* * **
1254675 TTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAGCATCAACTTTTCCAG
66 TTCAACCTTTTGCATGACTCTATCACAGAAGGAAATAGATCAACATCAAC-TCCCCAG
1254733 AGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAGCTTA
1 AGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAGCTTA
* ** *
1254798 TTTAACCTTTTGTTTGACTCTATCACACAGAAGGAAATAGGTCAACATC-A-TCCCCAG
66 TTCAACCTTTTGCATGACTCTAT--CACAGAAGGAAATAGATCAACATCAACTCCCCAG
*
1254855 CGGAAAGTTCATAATGAGAAGAACTCT-TCTGAAGA
1 -AGAAAGTTCATAATGAGAAGAACT-TATCTGAAGA
1254890 AAGAGAAGAA
Statistics
Matches: 141, Mismatches: 12, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
122 5 0.04
123 113 0.80
124 2 0.01
125 21 0.15
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.25
Consensus pattern (122 bp):
AGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAGCTTA
TTCAACCTTTTGCATGACTCTATCACAGAAGGAAATAGATCAACATCAACTCCCCAG
Found at i:1255075 original size:3 final size:3
Alignment explanation
Indices: 1255067--1255126 Score: 95
Period size: 3 Copynumber: 20.0 Consensus size: 3
1255057 TATTTTTTGT
*
1255067 TTA TTA TTA TTA TTA -TA TTA TTA TTTA TTA TTA TTA TTA TAA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
1255112 TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA
1255127 CAAATAAATA
Statistics
Matches: 53, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
2 2 0.04
3 48 0.91
4 3 0.06
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:1255098 original size:24 final size:25
Alignment explanation
Indices: 1255066--1255126 Score: 108
Period size: 24 Copynumber: 2.5 Consensus size: 25
1255056 ATATTTTTTG
1255066 TTTATTATTATTATTAT-ATTATTA
1 TTTATTATTATTATTATAATTATTA
1255090 TTTATTATTATTATTATAATTATTA
1 TTTATTATTATTATTATAATTATTA
1255115 -TTATTATTATTA
1 TTTATTATTATTA
1255127 CAAATAAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
24 29 0.81
25 7 0.19
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (25 bp):
TTTATTATTATTATTATAATTATTA
Found at i:1262022 original size:3 final size:3
Alignment explanation
Indices: 1262016--1262084 Score: 102
Period size: 3 Copynumber: 22.7 Consensus size: 3
1262006 TCATTTCGTT
** *
1262016 TTA TTA TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA ATA TTA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
1262065 TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TT
1262085 TAATAAATAT
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
3 56 0.95
4 3 0.05
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:1263668 original size:16 final size:15
Alignment explanation
Indices: 1263645--1263677 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
1263635 AAAAATCCTA
1263645 TTTATA-AAATTAAT
1 TTTATATAAATTAAT
*
1263659 TTTATATAAATTACT
1 TTTATATAAATTAAT
1263674 TTTA
1 TTTA
1263678 AGAAAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (15 bp):
TTTATATAAATTAAT
Found at i:1266821 original size:21 final size:21
Alignment explanation
Indices: 1266797--1266836 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1266787 CTTTTCATAC
1266797 ATGCATTTACATTTTGTATCT
1 ATGCATTTACATTTTGTATCT
*
1266818 ATGCATTTCCATTTTGTAT
1 ATGCATTTACATTTTGTAT
1266837 TCTTACTTTT
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:0.23, C:0.15, G:0.10, T:0.53
Consensus pattern (21 bp):
ATGCATTTACATTTTGTATCT
Found at i:1274217 original size:50 final size:50
Alignment explanation
Indices: 1274158--1274257 Score: 139
Period size: 50 Copynumber: 2.0 Consensus size: 50
1274148 TGATTGAGAA
* *
1274158 ATCTGAGCAGAAGCCACA-GAAAAGGATGAATGTGTTGTCAAGTGTTTTAC
1 ATCTGAGCAGAAACCACATG-AAAGGATGAATGTGTTGTCAAATGTTTTAC
* * *
1274208 ATCTGAGCAGAAACCACATGAGATGATGCATGTGTTGTCAAATGTTTTAC
1 ATCTGAGCAGAAACCACATGAAAGGATGAATGTGTTGTCAAATGTTTTAC
1274258 GAACCAGTTA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
50 43 0.98
51 1 0.02
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (50 bp):
ATCTGAGCAGAAACCACATGAAAGGATGAATGTGTTGTCAAATGTTTTAC
Found at i:1275463 original size:76 final size:76
Alignment explanation
Indices: 1275337--1275850 Score: 938
Period size: 76 Copynumber: 6.8 Consensus size: 76
1275327 CTATTTCCCA
1275337 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1275402 AGCCTTAGGGT
66 AGCCTTAGGGT
*
1275413 CATCTGTAAGTCCTACAGTGTATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
1275478 AACCTTAGGGT
66 AGCCTTAGGGT
* *
1275489 TATCTGTAAGTCCTATAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1275554 AGCCTTAGGGT
66 AGCCTTAGGGT
*
1275565 CATCTGTAAGTCGTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1275630 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
1275641 CATCTGTAAGTCGTACAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1275706 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
1275717 CATCTGTAAGTCGTACAATGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1275782 AGCCTTAGGGT
66 AGCCTTAGGGT
*
1275793 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATG
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATG
1275851 CTGTTATTTT
Statistics
Matches: 423, Mismatches: 15, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 423 1.00
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:1276219 original size:3 final size:3
Alignment explanation
Indices: 1276213--1276281 Score: 86
Period size: 3 Copynumber: 22.7 Consensus size: 3
1276203 TCATTTCGTT
** *
1276213 TTA TTA TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA ATA TTA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
1276262 TTA -TA TATA TTA TTA TTA TT
1 TTA TTA T-TA TTA TTA TTA TT
1276282 TAATAAATAT
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
2 2 0.04
3 49 0.86
4 6 0.11
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:1277818 original size:17 final size:16
Alignment explanation
Indices: 1277783--1277827 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
1277773 TTTTCATGAT
*
1277783 TATTTTTTATATATAA
1 TATTTTTTATTTATAA
*
1277799 TATTTATTTATTTATTA
1 TATTT-TTTATTTATAA
1277816 TATTTGTTTATT
1 TATTT-TTTATT
1277828 AAATAAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 5 0.20
17 20 0.80
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (16 bp):
TATTTTTTATTTATAA
Found at i:1277865 original size:16 final size:15
Alignment explanation
Indices: 1277842--1277874 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
1277832 AAAAATCCTA
1277842 TTTATA-AAATTAAT
1 TTTATATAAATTAAT
*
1277856 TTTATATAAATTACT
1 TTTATATAAATTAAT
1277871 TTTA
1 TTTA
1277875 AGAAAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (15 bp):
TTTATATAAATTAAT
Found at i:1285447 original size:15 final size:16
Alignment explanation
Indices: 1285429--1285461 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
1285419 GTGGAAAATC
1285429 AAAATCCAG-ACGGGA
1 AAAATCCAGAACGGGA
1285444 AAAATCCAGAACGGGA
1 AAAATCCAGAACGGGA
1285460 AA
1 AA
1285462 GAAAGATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.52, C:0.18, G:0.24, T:0.06
Consensus pattern (16 bp):
AAAATCCAGAACGGGA
Found at i:1292954 original size:23 final size:25
Alignment explanation
Indices: 1292927--1292974 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
1292917 CCTATTCTGA
1292927 TATTT-TAAA-ATAAATAAATATAT
1 TATTTATAAAGATAAATAAATATAT
* *
1292950 TATTTATAAAGATATATATATATAT
1 TATTTATAAAGATAAATAAATATAT
1292975 ATATACTTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 5 0.24
24 4 0.19
25 12 0.57
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (25 bp):
TATTTATAAAGATAAATAAATATAT
Found at i:1294574 original size:36 final size:36
Alignment explanation
Indices: 1294527--1294595 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
1294517 CTATGCACAT
* *
1294527 AAAGATCATGTTATATTGATACCAAAAGTATTCCAC
1 AAAGATCATGTTAGATTGATACCAAAAGCATTCCAC
1294563 AAAGATCATGTTAGATTGATACCAAAAGCATTC
1 AAAGATCATGTTAGATTGATACCAAAAGCATTC
1294596 TACGGTAAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.29
Consensus pattern (36 bp):
AAAGATCATGTTAGATTGATACCAAAAGCATTCCAC
Found at i:1297176 original size:7 final size:7
Alignment explanation
Indices: 1297166--1297212 Score: 62
Period size: 7 Copynumber: 6.9 Consensus size: 7
1297156 TCATAAGGAA
1297166 AAAAAAG
1 AAAAAAG
1297173 AAAAAAG
1 AAAAAAG
1297180 AAAAAA-
1 AAAAAAG
*
1297186 AAAAGA-
1 AAAAAAG
1297192 AAAAAAG
1 AAAAAAG
1297199 AAAAAAGG
1 AAAAAA-G
1297207 AAAAAA
1 AAAAAA
1297213 ATTGAATCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
6 10 0.28
7 19 0.53
8 7 0.19
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:1297178 original size:8 final size:8
Alignment explanation
Indices: 1297165--1297213 Score: 62
Period size: 8 Copynumber: 5.9 Consensus size: 8
1297155 ATCATAAGGA
1297165 AAAAAAAG
1 AAAAAAAG
*
1297173 AAAAAAGAAA
1 -AAAAA-AAG
1297183 AAAAAAAG
1 AAAAAAAG
1297191 AAAAAAAG
1 AAAAAAAG
*
1297199 AAAAAAGG
1 AAAAAAAG
1297207 AAAAAAA
1 AAAAAAA
1297214 TTGAATCAAG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
8 23 0.66
9 10 0.29
10 2 0.06
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:1297187 original size:11 final size:11
Alignment explanation
Indices: 1297164--1297197 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
1297154 CATCATAAGG
*
1297164 AAAAA-AAAGA
1 AAAAAGAAAAA
1297174 AAAAAGAAAAA
1 AAAAAGAAAAA
1297185 AAAAAGAAAAA
1 AAAAAGAAAAA
1297196 AA
1 AA
1297198 GAAAAAAGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 5 0.23
11 17 0.77
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:1297188 original size:19 final size:19
Alignment explanation
Indices: 1297164--1297204 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
1297154 CATCATAAGG
1297164 AAAAAAAAG-AAAAAAGAA
1 AAAAAAAAGAAAAAAAGAA
1297182 AAAAAAAAGAAAAAAAGAA
1 AAAAAAAAGAAAAAAAGAA
1297201 AAAA
1 AAAA
1297205 GGAAAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 9 0.41
19 13 0.59
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (19 bp):
AAAAAAAAGAAAAAAAGAA
Found at i:1297213 original size:18 final size:18
Alignment explanation
Indices: 1297160--1297204 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
1297150 CATTCATCAT
1297160 AAGG-AAAAAAAAGAAAA
1 AAGGAAAAAAAAAGAAAA
*
1297177 AAGAAAAAAAAAAGAAAA
1 AAGGAAAAAAAAAGAAAA
*
1297195 AAAGAAAAAA
1 AAGGAAAAAA
1297205 GGAAAAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 3 0.12
18 21 0.88
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (18 bp):
AAGGAAAAAAAAAGAAAA
Found at i:1300829 original size:22 final size:22
Alignment explanation
Indices: 1300801--1300857 Score: 105
Period size: 22 Copynumber: 2.6 Consensus size: 22
1300791 ACATCTACAT
1300801 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
1300823 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
1300845 TTTTCAAAGATGA
1 TCTTCAAAGATGA
1300858 AAACTTTATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (22 bp):
TCTTCAAAGATGATAGATTCTC
Found at i:1301692 original size:73 final size:73
Alignment explanation
Indices: 1301570--1301823 Score: 429
Period size: 73 Copynumber: 3.5 Consensus size: 73
1301560 GGATGTTTTC
*
1301570 AAATATCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTGTTTCTCGCTGGAGAAAGT
1 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTGTTTCTCGCTGGAGAAAGT
1301635 TTCACTTG
66 TTCACTTG
* *
1301643 AAATAGCAATTTATTTCACTTGAGATTGTTTTTCTTAAAAC-AATCTGTTTCTCGCTAGAGAAAG
1 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAT-TGTTTCTCGCTGGAGAAAG
1301707 TTTCACTTG
65 TTTCACTTG
*
1301716 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTATTTCTCGCTGGAGAAAGT
1 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTGTTTCTCGCTGGAGAAAGT
**
1301781 TTCACTCA
66 TTCACTTG
*
1301789 AAATAGCCATTTATCTCACTTGAGATTGTTTTTCT
1 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCT
1301824 CAACATTTCC
Statistics
Matches: 170, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
72 3 0.02
73 164 0.96
74 3 0.02
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.41
Consensus pattern (73 bp):
AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTGTTTCTCGCTGGAGAAAGT
TTCACTTG
Found at i:1302042 original size:123 final size:123
Alignment explanation
Indices: 1301823--1302278 Score: 777
Period size: 123 Copynumber: 3.7 Consensus size: 123
1301813 ATTGTTTTTC
1301823 TCAACATTTCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAA
1 TCAACATTTCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAA
* * *
1301888 CGAGAAGAACTTGTTCAACCTCTTGCTCGACTCTATCACAGAAGGAGATAGATCATCA
66 TGAGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCACAGAAGGAGATAGATCAGCA
*
1301946 TCAACATTTCCAGGTAGAGTTCATAATGAGAAGAGCTCATCTGAAGAGGAAGAAGAAGTTCATAA
1 TCAACATTTCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAA
*
1302011 TGAGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCACAGAAGGAGATAGATCGGCA
66 TGAGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCACAGAAGGAGATAGATCAGCA
* * *
1302069 TCAATATTTCCAGGTAGAGATCATAATGAGAAGAACCCATCTGAAGAGGAAGAAGAAGTTCATAA
1 TCAACATTTCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAA
* * * * *
1302134 TGAAAAGAACTTGTTGAACCTTTTGCTCGACTCTATCATAGAAGGAGATATATCAGAA
66 TGAGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCACAGAAGGAGATAGATCAGCA
* *
1302192 TCAACATTGCTAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAA
1 TCAACATTTCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAA
1302257 TGAGAAGAACTTGTTCAACCTT
66 TGAGAAGAACTTGTTCAACCTT
1302279 GCCTGAATTC
Statistics
Matches: 311, Mismatches: 22, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
123 311 1.00
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (123 bp):
TCAACATTTCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAA
TGAGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCACAGAAGGAGATAGATCAGCA
Found at i:1302643 original size:3 final size:3
Alignment explanation
Indices: 1302623--1302664 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
1302613 ATTTGGTTTT
* * *
1302623 TTA TTT TTA TTT TTA TTA TTA TTA TTA ATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1302665 CAGGCCCAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:1304204 original size:2 final size:2
Alignment explanation
Indices: 1304197--1304235 Score: 62
Period size: 2 Copynumber: 19.5 Consensus size: 2
1304187 TTTTAAATGA
1304197 AT AT AT AT GAT AT AT AT -T AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1304236 CTTTACTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 1 0.03
2 32 0.91
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1306003 original size:17 final size:17
Alignment explanation
Indices: 1305983--1306015 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
1305973 ATTTATTCAA
1305983 ATTTTC-TCTTTCTCTTT
1 ATTTTCTTCTTT-TCTTT
1306000 ATTTTCTTCTTTTCTT
1 ATTTTCTTCTTTTCTT
1306016 GTTCTCTCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.06, C:0.21, G:0.00, T:0.73
Consensus pattern (17 bp):
ATTTTCTTCTTTTCTTT
Found at i:1306658 original size:21 final size:20
Alignment explanation
Indices: 1306613--1306658 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
1306603 GATTCAATCT
*
1306613 GTTTTTCTCGATTAAGATCC
1 GTTTTTCCCGATTAAGATCC
1306633 GTTTTTCCCGATTAAGATCC
1 GTTTTTCCCGATTAAGATCC
1306653 GTTTTT
1 GTTTTT
1306659 GTTGTAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.17, C:0.20, G:0.15, T:0.48
Consensus pattern (20 bp):
GTTTTTCCCGATTAAGATCC
Found at i:1307420 original size:2 final size:2
Alignment explanation
Indices: 1307413--1307456 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
1307403 TATGGAAATG
1307413 AT AT AT AT AT AT 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 AT AT AT AT AT AT
1307455 AT
1 AT
1307457 CTAAATCAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1313440 original size:44 final size:44
Alignment explanation
Indices: 1313390--1313475 Score: 127
Period size: 44 Copynumber: 2.0 Consensus size: 44
1313380 TAGCTTGTAA
* *
1313390 TTTGCACCGAAGTGCCATATAATTGTCCCAAATGACCACATAGG
1 TTTGCACCGAAGTGCCACATAATTGTCCCAAAGGACCACATAGG
* * *
1313434 TTTGCACCGAAGTGCCACATATTTGTCTCGAAGGACCACATA
1 TTTGCACCGAAGTGCCACATAATTGTCCCAAAGGACCACATA
1313476 AAACCCTCGA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (44 bp):
TTTGCACCGAAGTGCCACATAATTGTCCCAAAGGACCACATAGG
Found at i:1314097 original size:54 final size:54
Alignment explanation
Indices: 1314032--1314162 Score: 158
Period size: 54 Copynumber: 2.4 Consensus size: 54
1314022 GATACTTCTC
* * * *
1314032 TTCAAGGGTATCTATACCTCCTCATGGTACCGATACCGATA-T-AGCATTCGATGT
1 TTCAAGGGTATCGATACCTCCTCAAGGTAACGATACC-AAACTGA-CATTCGATGT
* *
1314086 TTCAAAGGTATCGATACCTCTTCAAGGTAACGATACCAAACTGACATTCGATGT
1 TTCAAGGGTATCGATACCTCCTCAAGGTAACGATACCAAACTGACATTCGATGT
*
1314140 TTTAAGGGTATCGATACCATCCT
1 TTCAAGGGTATCGATACC-TCCT
1314163 TCAGGTATTG
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
53 2 0.03
54 59 0.91
55 4 0.06
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.31
Consensus pattern (54 bp):
TTCAAGGGTATCGATACCTCCTCAAGGTAACGATACCAAACTGACATTCGATGT
Found at i:1314183 original size:20 final size:20
Alignment explanation
Indices: 1314146--1314216 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
1314136 ATGTTTTAAG
* *
1314146 GGTATCGATACCATCCTTCA
1 GGTATCGATACTACCCTTCA
*
1314166 GGTATTGATACTACCCTT-A
1 GGTATCGATACTACCCTTCA
*
1314185 TAGTATCGATACTACCCTTACA
1 -GGTATCGATACTACCCTT-CA
1314207 -GTATCGATAC
1 GGTATCGATAC
1314217 CTATTCAACA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
19 1 0.02
20 41 0.95
22 1 0.02
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.32
Consensus pattern (20 bp):
GGTATCGATACTACCCTTCA
Found at i:1320198 original size:21 final size:21
Alignment explanation
Indices: 1320174--1320223 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
1320164 CACCAAAGTG
* **
1320174 CCACATATTTATCCTGAAGAA
1 CCACATAATTATCCCAAAGAA
*
1320195 CCACATAATTATCCCAAAGGA
1 CCACATAATTATCCCAAAGAA
1320216 CCACATAA
1 CCACATAA
1320224 AACCCTCAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.42, C:0.28, G:0.08, T:0.22
Consensus pattern (21 bp):
CCACATAATTATCCCAAAGAA
Found at i:1320875 original size:53 final size:53
Alignment explanation
Indices: 1320776--1320893 Score: 143
Period size: 53 Copynumber: 2.2 Consensus size: 53
1320766 GATACTTCCC
* *
1320776 TTCAAGGGTATCGATACTCCTCATAGTACAGATACCGATATAGCATTCGATGT
1 TTCAAGGGTATTGATACTCCTCATAGTACAGATACCGATATAGCATTCGATAT
* *
1320829 TTCAAGGGTATTGATACCTCCTCA-AGGTACTGATACC-A-ACTGGCATTCGATAT
1 TTCAAGGGTATTGATA-CTCCTCATA-GTACAGATACCGATA-TAGCATTCGATAT
*
1320882 TTTAAGGGTATT
1 TTCAAGGGTATT
1320894 AATATCATCC
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
52 1 0.02
53 39 0.68
54 17 0.30
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.32
Consensus pattern (53 bp):
TTCAAGGGTATTGATACTCCTCATAGTACAGATACCGATATAGCATTCGATAT
Found at i:1320931 original size:21 final size:21
Alignment explanation
Indices: 1320906--1320960 Score: 110
Period size: 21 Copynumber: 2.6 Consensus size: 21
1320896 TATCATCCTT
1320906 CAGGTATCGATACCTATTCAA
1 CAGGTATCGATACCTATTCAA
1320927 CAGGTATCGATACCTATTCAA
1 CAGGTATCGATACCTATTCAA
1320948 CAGGTATCGATAC
1 CAGGTATCGATAC
1320961 TATCCTTAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (21 bp):
CAGGTATCGATACCTATTCAA
Found at i:1323320 original size:21 final size:20
Alignment explanation
Indices: 1323287--1323326 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
1323277 CAGAATAGGA
*
1323287 CTATAACGGTGTTTTTAAGTC
1 CTATAACGATG-TTTTAAGTC
*
1323308 CTATAGCGATGTTTTAAGT
1 CTATAACGATGTTTTAAGT
1323327 ACCACCAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.25, C:0.12, G:0.20, T:0.42
Consensus pattern (20 bp):
CTATAACGATGTTTTAAGTC
Found at i:1326977 original size:77 final size:75
Alignment explanation
Indices: 1326896--1327291 Score: 419
Period size: 77 Copynumber: 5.2 Consensus size: 75
1326886 CTAAAATTGA
** *
1326896 CATGGTTCACTAAGAAATAGATTATGATGTAGAATGTTAATATTTTTATTAATAAAATGGGTCAT
1 CATGGTTCACTAAGAAATAGATTGCGATCTAGAATGTTAATATTTTTATTAATAAAATGGGT--T
*
1326961 GCCCAATAATGT
64 GCCCAAGAATGT
* * *
1326973 CATGG----CTAAGAAATAGGTTGCGATCTATAATGTTAATAATTTTTATTAATAAAAAGGGTTG
1 CATGGTTCACTAAGAAATAGATTGCGATCTAGAATGTTAAT-ATTTTTATTAATAAAATGGGTTG
1327034 CACCCAAGAATGT
65 --CCCAAGAATGT
* * ** * * * *
1327047 CATGGTTCACTAATAAATAGGTTGTTATTTGGAATGTTAATATTTTTATTAATAAAATAGATTGC
1 CATGGTTCACTAAGAAATAGATTGCGATCTAGAATGTTAATATTTTTATTAATAAAATGGGTTGC
*
1327112 GCTCGAGAATGT
66 -C-CAAGAATGT
* *
1327124 CATGGTTCACTAAGAAATAGACTGCGATCT-GCAATGTTAATATTTTTATTAATAAAATGAGTTT
1 CATGGTTCACTAAGAAATAGATTGCGATCTAG-AATGTTAATATTTTTATTAATAAAATG-GGTT
1327188 CGCCCAAGAATGT
64 -GCCCAAGAATGT
* ** * * *
1327201 CATAGTTCACTAAGAAATAGATTGAAATCTGGAATGTTAATATTTTTATTAATAAAATGGTTTGA
1 CATGGTTCACTAAGAAATAGATTGCGATCTAGAATGTTAATATTTTTATTAATAAAATGGGTTGC
*
1327266 GC-A-AATGT
66 CCAAGAATGT
*
1327274 TATGGTTCACTAAGAAAT
1 CATGGTTCACTAAGAAAT
1327292 CAATTTGTGA
Statistics
Matches: 272, Mismatches: 34, Indels: 30
0.81 0.10 0.09
Matches are distributed among these distances:
72 2 0.01
73 48 0.18
74 36 0.13
75 3 0.01
76 6 0.02
77 144 0.53
78 31 0.11
79 2 0.01
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.36
Consensus pattern (75 bp):
CATGGTTCACTAAGAAATAGATTGCGATCTAGAATGTTAATATTTTTATTAATAAAATGGGTTGC
CCAAGAATGT
Found at i:1327219 original size:154 final size:152
Alignment explanation
Indices: 1326900--1327291 Score: 465
Period size: 154 Copynumber: 2.6 Consensus size: 152
1326890 AATTGACATG
* * * * *
1326900 GTTCACTAAGAAATAGATTATGATGTAGAATGTTAATATTTTTATTAATAAAATGGGTCATGC-C
1 GTTCACTAAGAAATAGATTGTAATCTGGAATGTTAATATTTTTATTAATAAAATGGAT--TGCGC
** *
1326964 CAATAATGTCATGG----CTAAGAAATAGGTTGCGATCTATAATGTTAATAATTTTTATTAATAA
64 C-A-AATGTCATGGTTCACTAAGAAATAGACTGCGATCTACAATGTTAATAATTTTTATTAATAA
* *
1327025 AAAGGGTTGCACCCAAGAATGTCATG
127 AAAGAGTTGCACCCAAGAATGTCATA
* * * * *
1327051 GTTCACTAATAAATAGGTTGTTATTTGGAATGTTAATATTTTTATTAATAAAATAGATTGCGCTC
1 GTTCACTAAGAAATAGATTGTAATCTGGAATGTTAATATTTTTATTAATAAAATGGATTGCGC-C
*
1327116 GAGAATGTCATGGTTCACTAAGAAATAGACTGCGATCTGCAATGTTAAT-ATTTTTATTAATAAA
65 -A-AATGTCATGGTTCACTAAGAAATAGACTGCGATCTACAATGTTAATAATTTTTATTAATAAA
* * *
1327180 ATGAGTTTCGCCCAAGAATGTCATA
128 AAGAGTTGCACCCAAGAATGTCATA
* * *
1327205 GTTCACTAAGAAATAGATTGAAATCTGGAATGTTAATATTTTTATTAATAAAATGGTTTGAG-CA
1 GTTCACTAAGAAATAGATTGTAATCTGGAATGTTAATATTTTTATTAATAAAATGGATTGCGCCA
*
1327269 AATGTTATGGTTCACTAAGAAAT
66 AATGTCATGGTTCACTAAGAAAT
1327292 CAATTTGTGA
Statistics
Matches: 207, Mismatches: 28, Indels: 13
0.83 0.11 0.05
Matches are distributed among these distances:
149 3 0.01
150 23 0.11
151 63 0.30
152 1 0.00
154 89 0.43
155 28 0.14
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.36
Consensus pattern (152 bp):
GTTCACTAAGAAATAGATTGTAATCTGGAATGTTAATATTTTTATTAATAAAATGGATTGCGCCA
AATGTCATGGTTCACTAAGAAATAGACTGCGATCTACAATGTTAATAATTTTTATTAATAAAAAG
AGTTGCACCCAAGAATGTCATA
Found at i:1327332 original size:228 final size:228
Alignment explanation
Indices: 1326896--1327333 Score: 525
Period size: 228 Copynumber: 1.9 Consensus size: 228
1326886 CTAAAATTGA
* * * *
1326896 CATGGTTCACTAAGAAATAGATTATGATGTAGAATGTTAATATTTTTATTAATAAAATGGGTCAT
1 CATGGTTCACTAAGAAATAGACTACGATCTAGAATGTTAATATTTTTATTAATAAAATGAGTCAT
* * * ** *
1326961 GCCCAATAATGTCATGGCTAAGAAATAGGTTGCGATCTATAATGTTAATAATTTTTATTAATAAA
66 GCCCAAGAATGTCATGACTAAGAAATAGATTGAAATCTAGAATGTTAATAATTTTTATTAATAAA
* * * *
1327026 AAGGGTTGCACCCAAGAATGTCATGGTTCACTAATAAATAGGTTGTTATTTGGAATGTTAATATT
131 AAGGGTTGCACCCAAGAATGTCATGGTTCACTAAGAAATAAGTTGTGATATGGAATGTTAATATT
1327091 TTTATTAATAAAATAGATTGCGCTCGAGAATGT
196 TTTATTAATAAAATAGATTGCGCTCGAGAATGT
* *
1327124 CATGGTTCACTAAGAAATAGACTGCGATCT-GCAATGTTAATATTTTTATTAATAAAATGAGT-T
1 CATGGTTCACTAAGAAATAGACTACGATCTAG-AATGTTAATATTTTTATTAATAAAATGAGTCA
*
1327187 TCGCCCAAGAATGTCATAGTTCACTAAGAAATAGATTGAAATCTGGAATGTTAAT-ATTTTTATT
65 T-GCCCAAGAATGTCAT-G---ACTAAGAAATAGATTGAAATCTAGAATGTTAATAATTTTTATT
* * * * *
1327251 AATAAAATGGTTTG-A-GC-A-AATGTTATGGTTCACTAAGAAATCAATTTGTGATATGG-ATAG
125 AATAAAAAGGGTTGCACCCAAGAATGTCATGGTTCACTAAGAAAT-AAGTTGTGATATGGAAT-G
*
1327311 TTAATTTTTTCTATT-ATAAAATA
188 TTAATATTTT-TATTAATAAAATA
1327334 TTTGAAAGTA
Statistics
Matches: 178, Mismatches: 23, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
227 25 0.14
228 98 0.55
229 6 0.03
230 1 0.01
231 21 0.12
232 27 0.15
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (228 bp):
CATGGTTCACTAAGAAATAGACTACGATCTAGAATGTTAATATTTTTATTAATAAAATGAGTCAT
GCCCAAGAATGTCATGACTAAGAAATAGATTGAAATCTAGAATGTTAATAATTTTTATTAATAAA
AAGGGTTGCACCCAAGAATGTCATGGTTCACTAAGAAATAAGTTGTGATATGGAATGTTAATATT
TTTATTAATAAAATAGATTGCGCTCGAGAATGT
Found at i:1329324 original size:82 final size:84
Alignment explanation
Indices: 1329193--1329357 Score: 230
Period size: 82 Copynumber: 2.0 Consensus size: 84
1329183 TTATGGATTT
*
1329193 ATCAGATACTTTTCCGAAAATATTGATATTTTTTAAATTCGAAAATTAAAATATCATTTT-TCAC
1 ATCAGATACTTTTCCGAAAATATCGATATTTTTTAAATTCGAAAATTAAAATATCATTTTCT-AC
1329257 GATTATTTTAATTCGAAAGC
65 GATTATTTTAATTCGAAAGC
* * *
1329277 ATCA-ATATTTTTCC-AAAAGTATCGATA-TTTTTAAATTCGAAAGTTAAAATATCATTTTCTAT
1 ATCAGATACTTTTCCGAAAA-TATCGATATTTTTTAAATTCGAAAATTAAAATATCATTTTCTAC
* *
1329339 GTTTTTTTTAATTCGAAAG
65 GATTATTTTAATTCGAAAG
1329358 TATGGATACT
Statistics
Matches: 73, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
82 52 0.71
83 17 0.23
84 4 0.05
ACGTcount: A:0.37, C:0.11, G:0.08, T:0.44
Consensus pattern (84 bp):
ATCAGATACTTTTCCGAAAATATCGATATTTTTTAAATTCGAAAATTAAAATATCATTTTCTACG
ATTATTTTAATTCGAAAGC
Found at i:1329384 original size:19 final size:19
Alignment explanation
Indices: 1329357--1329408 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
1329347 TAATTCGAAA
* *
1329357 GTATGGATACTTTGCAAAT
1 GTATCGATACTTTCCAAAT
*
1329376 GTATTGATACTTTCCAAAT
1 GTATCGATACTTTCCAAAT
1329395 GTATCGATACTTTC
1 GTATCGATACTTTC
1329409 GAATTTTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.40
Consensus pattern (19 bp):
GTATCGATACTTTCCAAAT
Found at i:1329496 original size:26 final size:28
Alignment explanation
Indices: 1329467--1329519 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
1329457 AATTTTCCAC
*
1329467 AAATATTAAT-AC-TTTTATTTTTTTAT
1 AAATATTAATAACATTTTATTCTTTTAT
*
1329493 AAATATTCATAACATTTTATTCTTTTA
1 AAATATTAATAACATTTTATTCTTTTA
1329520 ACTTAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 9 0.39
27 2 0.09
28 12 0.52
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.57
Consensus pattern (28 bp):
AAATATTAATAACATTTTATTCTTTTAT
Found at i:1329654 original size:98 final size:98
Alignment explanation
Indices: 1329538--1329944 Score: 373
Period size: 101 Copynumber: 4.1 Consensus size: 98
1329528 TTGTTATGAC
* *
1329538 CATGATAACGTAGTAGGTAGTGCCCTTTTGTGTCAACCGTTTAAGTTATAAGTATGAAATCATTT
1 CATGATAACGTAGTAGGTAGTGCCCTTTTGTGCCAACCGTTTAAGTTATAAGTATGAAACCATTT
** *
1329603 ATATGATGCTGAAGTAAGACAAAACATCTTTCT
66 ATATGATGCAAAAGTAAGACAAAACATCTTGCT
*
1329636 CATGATAACGTAGTAGGTAGTGCCCTTTTGTGCCAACCGTTTAAGTTATAAGTATGAAACCGTTT
1 CATGATAACGTAGTAGGTAGTGCCCTTTTGTGCCAACCGTTTAAGTTATAAGTATGAAACCATTT
* *
1329701 ATATTATGCAAAAGTAAGACAAAACATGTTGCT
66 ATATGATGCAAAAGTAAGACAAAACATCTTGCT
* * **** * * * * * * * **
1329734 GATGATAACGTACTAGGTAGCGTTTGTTTTTAATGTCAATCATTTAAATTTTAGGTATGAAACTG
1 CATGATAACGTAGTAGGTA--GTGCCCTTTT-GTGCCAACCGTTTAAGTTATAAGTATGAAACCA
* *
1329799 TTTATATTATGCAAAAGTAAGACAAAACATGTTGCT
63 TTTATATGATGCAAAAGTAAGACAAAACATCTTGCT
* * *** * * ** * * *
1329835 CATGATAATGTACTAGGTAACACCTTTTTCAAATGTTAATCGTTTAAGTTATATGTATGAAACCG
1 CATGATAACGTAGTAGGTAGTGCCCTTTT---GTGCCAACCGTTTAAGTTATAAGTATGAAACCA
* * * * **
1329900 TTTACATTATGTAAAAGTAAGACAAAACATGTTTTT
63 TTTATATGATGCAAAAGTAAGACAAAACATCTTGCT
1329936 CATGATAAC
1 CATGATAAC
1329945 ATAATAGGCA
Statistics
Matches: 264, Mismatches: 40, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
98 107 0.41
99 5 0.02
100 6 0.02
101 146 0.55
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (98 bp):
CATGATAACGTAGTAGGTAGTGCCCTTTTGTGCCAACCGTTTAAGTTATAAGTATGAAACCATTT
ATATGATGCAAAAGTAAGACAAAACATCTTGCT
Found at i:1330400 original size:62 final size:62
Alignment explanation
Indices: 1330268--1330400 Score: 155
Period size: 62 Copynumber: 2.1 Consensus size: 62
1330258 ATTGATTATC
* * *
1330268 ATTGCATAAGTATGAATGTTTTAAATTTCGATCTTTTTATCAATTTTTTCAATTTTTAAAAGT
1 ATTG-ATAAGTATCAATATTTTAAATTTCGATCTTTTTATCAATTTTTTCAATATTTAAAAGT
* * *
1330331 GTCGATAAGTATCAATATTTTAAATTTTGATCTTATATT-T-AAGTTTTTT-AATATTTAAAAGT
1 ATTGATAAGTATCAATATTTTAAATTTCGATCTT-T-TTATCAA-TTTTTTCAATATTTAAAAGT
1330393 ATTGATAA
1 ATTGATAA
1330401 TAATATATTA
Statistics
Matches: 59, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
62 47 0.80
63 10 0.17
64 2 0.03
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.50
Consensus pattern (62 bp):
ATTGATAAGTATCAATATTTTAAATTTCGATCTTTTTATCAATTTTTTCAATATTTAAAAGT
Found at i:1333601 original size:19 final size:21
Alignment explanation
Indices: 1333577--1333632 Score: 55
Period size: 22 Copynumber: 2.7 Consensus size: 21
1333567 ACACCGGAAG
1333577 GGGGTATCGATACCATAG-AA
1 GGGGTATCGATACCATAGTAA
* *
1333597 TGGTAGTATCGATA-CATGGTAA
1 -GG-GGTATCGATACCATAGTAA
1333619 -GGGTATCGATACCA
1 GGGGTATCGATACCA
1333633 GAAAACATCG
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
19 9 0.31
20 3 0.10
21 6 0.21
22 11 0.38
ACGTcount: A:0.32, C:0.14, G:0.29, T:0.25
Consensus pattern (21 bp):
GGGGTATCGATACCATAGTAA
Found at i:1333630 original size:94 final size:93
Alignment explanation
Indices: 1333487--1333688 Score: 273
Period size: 94 Copynumber: 2.2 Consensus size: 93
1333477 GATTCAATTA
* *
1333487 GTATCGATACCA-ATGAGGTAGTATCGATACCATGGTAAGAGTATTGATACCAGATAACATCGAA
1 GTATCGATACCATA-GAGGTAGTATCGATACCATGGTAAGAGTATCGATACCAGAAAACATCGAA
** *
1333551 TTTAAAATTGGTATCGACACCGGAAGGGG
65 GCTAAAATTGGTATCGACACCAGAAGGGG
*
1333580 GTATCGATACCATAGAATGGTAGTATCGATA-CATGGTAAGGGTATCGATACCAGAAAACATCGA
1 GTATCGATACCATAG-A-GGTAGTATCGATACCATGGTAAGAGTATCGATACCAGAAAACATCGA
* * *
1333644 AGCTAAAATTGGTATCGATACTAGAATGGG
64 AGCTAAAATTGGTATCGACACCAGAAGGGG
*
1333674 GTATCAATACCATAG
1 GTATCGATACCATAG
1333689 TATAGAAGTG
Statistics
Matches: 96, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
93 13 0.14
94 70 0.73
95 13 0.14
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.25
Consensus pattern (93 bp):
GTATCGATACCATAGAGGTAGTATCGATACCATGGTAAGAGTATCGATACCAGAAAACATCGAAG
CTAAAATTGGTATCGACACCAGAAGGGG
Found at i:1340173 original size:45 final size:45
Alignment explanation
Indices: 1340124--1340268 Score: 177
Period size: 45 Copynumber: 3.5 Consensus size: 45
1340114 CATAAAAGAA
*
1340124 TAATGCATATGGGTGCATTATTGGCATGAAAGGATGACATGGCTG
1 TAATGCATATGGGTGCATTATTGGCATGAAAGGATGACATAGCTG
*
1340169 TAATGCATATGGGTGCATTATCGGCAT-AAA--A-G--A-A----
1 TAATGCATATGGGTGCATTATTGGCATGAAAGGATGACATAGCTG
*
1340203 TAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTG
1 TAATGCATATGGGTGCATTATTGGCATGAAAGGATGACATAGCTG
*
1340248 AAATGCATATGGGTGCATTAT
1 TAATGCATATGGGTGCATTAT
1340269 CAACATAAAA
Statistics
Matches: 85, Mismatches: 4, Indels: 22
0.77 0.04 0.20
Matches are distributed among these distances:
34 26 0.31
35 3 0.04
37 1 0.01
38 1 0.01
39 1 0.01
40 1 0.01
41 2 0.02
42 1 0.01
44 3 0.04
45 46 0.54
ACGTcount: A:0.32, C:0.12, G:0.28, T:0.29
Consensus pattern (45 bp):
TAATGCATATGGGTGCATTATTGGCATGAAAGGATGACATAGCTG
Found at i:1340222 original size:79 final size:79
Alignment explanation
Indices: 1340091--1340480 Score: 460
Period size: 79 Copynumber: 4.9 Consensus size: 79
1340081 TCATAATTAA
* *
1340091 AATGCATATGGGTACATTATCGACATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAG
1 AATGCATATGGGTGCATTATCGGCATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAG
*
1340156 GATGACATGGCTGT
66 GATGACATAGCTGT
1340170 AATGCATATGGGTGCATTATCGGCATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAG
1 AATGCATATGGGTGCATTATCGGCATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAG
* *
1340235 GATGCCATAGCTGA
66 GATGACATAGCTGT
** *
1340249 AATGCATATGGGTGCATTATCAACATAAAAGAGTAATGCATATGGGTGCATTATTGGCATGAAAG
1 AATGCATATGGGTGCATTATCGGCATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAG
*
1340314 GATGACATAGCTGG
66 GATGACATAGCTGT
*
1340328 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATGGGTGCATTAT
1 AATGCATATGGGTGCATTATCGGCAT-AAA--A-G--A-A--T--AATGCATATGGGTGCATTAT
**
1340393 CAGCAT-AAA--A-G--A-A----T
55 TGGCATGAAAGGATGACATAGCTGT
* * *
1340407 AATACATATGGGTGCATTATCGGCATAAAAGAATAATGCATATGGGTTCATTATTGGCATTAAAG
1 AATGCATATGGGTGCATTATCGGCATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAG
*
1340472 GATGTCATA
66 GATGACATA
1340481 ACTAAAATGC
Statistics
Matches: 271, Mismatches: 22, Indels: 40
0.81 0.07 0.12
Matches are distributed among these distances:
68 23 0.08
69 3 0.01
70 1 0.00
71 1 0.00
72 2 0.01
73 1 0.00
74 1 0.00
75 2 0.01
76 1 0.00
78 3 0.01
79 195 0.72
80 3 0.01
82 1 0.00
83 2 0.01
84 1 0.00
85 1 0.00
86 1 0.00
87 1 0.00
88 1 0.00
89 3 0.01
90 24 0.09
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.28
Consensus pattern (79 bp):
AATGCATATGGGTGCATTATCGGCATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAG
GATGACATAGCTGT
Found at i:1340332 original size:45 final size:45
Alignment explanation
Indices: 1340283--1340392 Score: 202
Period size: 45 Copynumber: 2.4 Consensus size: 45
1340273 ATAAAAGAGT
*
1340283 AATGCATATGGGTGCATTATTGGCATGAAAGGATGACATAGCTGG
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGACATAGCTGA
*
1340328 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGA
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGACATAGCTGA
1340373 AATGCATATGGGTGCATTAT
1 AATGCATATGGGTGCATTAT
1340393 CAGCATAAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
45 63 1.00
ACGTcount: A:0.31, C:0.12, G:0.29, T:0.28
Consensus pattern (45 bp):
AATGCATATGGGTGCATTATTGGCATGAAAGGATGACATAGCTGA
Found at i:1340353 original size:124 final size:124
Alignment explanation
Indices: 1340204--1340437 Score: 423
Period size: 124 Copynumber: 1.9 Consensus size: 124
1340194 ATAAAAGAAT
1340204 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATGGGTGCATTAT
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATGGGTGCATTAT
* * * *
1340269 CAACATAAAAGAGTAATGCATATGGGTGCATTATTGGCATGAAAGGATGACATAGCTGG
66 CAACATAAAAGAATAATACATATGGGTGCATTATCGGCATAAAAGGATGACATAGCTGG
1340328 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATGGGTGCATTAT
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATGGGTGCATTAT
*
1340393 CAGCATAAAAGAATAATACATATGGGTGCATTATCGGCATAAAAG
66 CAACATAAAAGAATAATACATATGGGTGCATTATCGGCATAAAAG
1340438 AATAATGCAT
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
124 105 1.00
ACGTcount: A:0.35, C:0.12, G:0.26, T:0.26
Consensus pattern (124 bp):
AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATGGGTGCATTAT
CAACATAAAAGAATAATACATATGGGTGCATTATCGGCATAAAAGGATGACATAGCTGG
Found at i:1340415 original size:158 final size:160
Alignment explanation
Indices: 1340090--1340525 Score: 486
Period size: 158 Copynumber: 2.7 Consensus size: 160
1340080 TTCATAATTA
* *
1340090 AAATGCATATGGGTACATTATCGACATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAA
1 AAATACATATGGGTGCATTATCGACATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAA
* * *
1340155 GGATGACATGGCTGTAATGCATATGGGTGCATTATCGGCAT-AAA-A-G--A-ATAATGCATATG
66 GGATGACATAGCTGAAATGCATATGGGTGCATTATAGGCATGAAAGATGCCATATAATGCATATG
**
1340214 GGTGCATTATTGGCATGAAAGGATGCCATAGCT
131 GGTGCATTATCAGCATGAAA-GATG-CATA-CT
* * *
1340247 GAAATGCATATGGGTGCATTATCAACATAAAAGAGTAATGCATATGGGTGCATTATTGGCATGAA
1 -AAATACATATGGGTGCATTATCGACATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAA
* *
1340312 AGGATGACATAGCTGGAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATG
65 AGGATGACATAGCTGAAATGCATATGGGTGCATTATAGGCATGAAA-GATGCCATA--T--AATG
1340377 CATATGGGTGCATTATCAGCAT-AAA-A-G-A-A-T
125 CATATGGGTGCATTATCAGCATGAAAGATGCATACT
* * *
1340407 -AATACATATGGGTGCATTATCGGCATAAAAGAATAATGCATATGGGTTCATTATTGGCATTAAA
1 AAATACATATGGGTGCATTATCGACATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAA
* * * * *
1340471 GGATGTCATAACTAAAATGCATGAAAGGATGCATTA-AGGCATGAAATGATGCCAT
66 GGATGACATAGCTGAAATGCAT--ATGGGTGCATTATAGGCATGAAA-GATGCCAT
1340526 TACTAAAATT
Statistics
Matches: 243, Mismatches: 22, Indels: 25
0.84 0.08 0.09
Matches are distributed among these distances:
158 176 0.72
159 20 0.08
160 11 0.05
161 1 0.00
162 2 0.01
163 1 0.00
164 1 0.00
165 2 0.01
166 1 0.00
167 1 0.00
168 3 0.01
169 24 0.10
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.27
Consensus pattern (160 bp):
AAATACATATGGGTGCATTATCGACATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAA
GGATGACATAGCTGAAATGCATATGGGTGCATTATAGGCATGAAAGATGCCATATAATGCATATG
GGTGCATTATCAGCATGAAAGATGCATACT
Found at i:1340466 original size:34 final size:34
Alignment explanation
Indices: 1340373--1340471 Score: 153
Period size: 34 Copynumber: 2.9 Consensus size: 34
1340363 CCATAGCTGA
*
1340373 AATGCATATGGGTGCATTATCAGCATAAAAGAAT
1 AATGCATATGGGTGCATTATCGGCATAAAAGAAT
*
1340407 AATACATATGGGTGCATTATCGGCATAAAAGAAT
1 AATGCATATGGGTGCATTATCGGCATAAAAGAAT
* * *
1340441 AATGCATATGGGTTCATTATTGGCATTAAAG
1 AATGCATATGGGTGCATTATCGGCATAAAAG
1340472 GATGTCATAA
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 59 1.00
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.29
Consensus pattern (34 bp):
AATGCATATGGGTGCATTATCGGCATAAAAGAAT
Found at i:1340514 original size:20 final size:21
Alignment explanation
Indices: 1340489--1340527 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
1340479 TAACTAAAAT
1340489 GCATGAAAGGATG-CATTAAG
1 GCATGAAAGGATGCCATTAAG
*
1340509 GCATGAAATGATGCCATTA
1 GCATGAAAGGATGCCATTA
1340528 CTAAAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.38, C:0.13, G:0.26, T:0.23
Consensus pattern (21 bp):
GCATGAAAGGATGCCATTAAG
Found at i:1345180 original size:95 final size:95
Alignment explanation
Indices: 1345049--1345234 Score: 293
Period size: 95 Copynumber: 2.0 Consensus size: 95
1345039 ATACCAACGA
* **
1345049 GGTAGTATCGATACCATGGTAAGAGTATCGATACCA-GACTACATAGAATTTAAAATTGGTATAG
1 GGTAGTATCGATACCATGGTAAGAGTATCGATACCAGGA-AACATAGAAGCTAAAATTGGTATAG
*
1345113 ATACCGGAATGGGGTATCGGTACCATATAAT
65 ATACCGGAATGGGGTATCAGTACCATATAAT
* * *
1345144 GGTAGTATCGATACCATGGTAAGGGTATCGATACCAGGAAACATCGAAGCTAAAATTGGTATCGA
1 GGTAGTATCGATACCATGGTAAGAGTATCGATACCAGGAAACATAGAAGCTAAAATTGGTATAGA
1345209 TACCGGAATGGGGTATCAGTACCATA
66 TACCGGAATGGGGTATCAGTACCATA
1345235 GTGTAGAAGT
Statistics
Matches: 83, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
95 81 0.98
96 2 0.02
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (95 bp):
GGTAGTATCGATACCATGGTAAGAGTATCGATACCAGGAAACATAGAAGCTAAAATTGGTATAGA
TACCGGAATGGGGTATCAGTACCATATAAT
Found at i:1345832 original size:45 final size:44
Alignment explanation
Indices: 1345775--1345965 Score: 161
Period size: 34 Copynumber: 4.7 Consensus size: 44
1345765 AGAATAATGC
1345775 ATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCAT
1 ATGGGTGCATTATTGGCATGAAAGGATG-CATAGCTGAAATGCAT
* *
1345820 ATGGGTGCATTATCGACAT-AAA--A-G-A-A--T--AATGCAT
1 ATGGGTGCATTATTGGCATGAAAGGATGCATAGCTGAAATGCAT
1345854 ATGGGTGCATTATTGGCATGAAAGGATGTCATAGCTGAAATGCAT
1 ATGGGTGCATTATTGGCATGAAAGGATG-CATAGCTGAAATGCAT
* * *
1345899 ATGAGTGCATTATCGGTAT-AAA--A--CA-A--T--AATGCAT
1 ATGGGTGCATTATTGGCATGAAAGGATGCATAGCTGAAATGCAT
*
1345933 ATGGGTGCATTATTGGCAGGAAAGGATGTCATA
1 ATGGGTGCATTATTGGCATGAAAGGATG-CATA
1345966 ACTAAATTAA
Statistics
Matches: 117, Mismatches: 11, Indels: 40
0.70 0.07 0.24
Matches are distributed among these distances:
34 46 0.39
35 6 0.05
36 2 0.02
37 2 0.02
38 3 0.03
39 3 0.03
40 3 0.03
41 3 0.03
42 2 0.02
43 1 0.01
44 6 0.05
45 40 0.34
ACGTcount: A:0.35, C:0.12, G:0.26, T:0.28
Consensus pattern (44 bp):
ATGGGTGCATTATTGGCATGAAAGGATGCATAGCTGAAATGCAT
Found at i:1345887 original size:79 final size:79
Alignment explanation
Indices: 1345658--1345965 Score: 484
Period size: 79 Copynumber: 3.9 Consensus size: 79
1345648 CTCATAATTA
1345658 AAATGCATATGGGTGCATTATCGACATAAAACAATAATGCATAT-GGTCGCATTATTGGCATGAA
1 AAATGCATATGGGTGCATTATCGACATAAAACAATAATGCATATGGGT-GCATTATTGGCATGAA
*
1345722 AGGATGTCATAG-TT
65 AGGATGTCATAGCTG
*
1345736 AAATGCATAT-GGTGCATTATC-AGCATAAAAGAATAATGC--ATGGGTGCATTATTGGCATGAA
1 AAATGCATATGGGTGCATTATCGA-CATAAAACAATAATGCATATGGGTGCATTATTGGCATGAA
*
1345797 AGGATGCCATAGCTG
65 AGGATGTCATAGCTG
*
1345812 AAATGCATATGGGTGCATTATCGACATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAA
1 AAATGCATATGGGTGCATTATCGACATAAAACAATAATGCATATGGGTGCATTATTGGCATGAAA
1345877 GGATGTCATAGCTG
66 GGATGTCATAGCTG
* ** *
1345891 AAATGCATATGAGTGCATTATCGGTATAAAACAATAATGCATATGGGTGCATTATTGGCAGGAAA
1 AAATGCATATGGGTGCATTATCGACATAAAACAATAATGCATATGGGTGCATTATTGGCATGAAA
1345956 GGATGTCATA
66 GGATGTCATA
1345966 ACTAAATTAA
Statistics
Matches: 214, Mismatches: 9, Indels: 13
0.91 0.04 0.06
Matches are distributed among these distances:
75 29 0.14
76 15 0.07
77 53 0.25
78 11 0.05
79 106 0.50
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.28
Consensus pattern (79 bp):
AAATGCATATGGGTGCATTATCGACATAAAACAATAATGCATATGGGTGCATTATTGGCATGAAA
GGATGTCATAGCTG
Found at i:1349904 original size:20 final size:20
Alignment explanation
Indices: 1349881--1349930 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
1349871 CTAACGAGGT
1349881 AGTATCGATACCATGGTAAG
1 AGTATCGATACCATGGTAAG
1349901 AGTATCGATACCATGGTAAG
1 AGTATCGATACCATGGTAAG
1349921 AGTATCGATA
1 AGTATCGATA
1349931 TCAGACAACA
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:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (20 bp):
AGTATCGATACCATGGTAAG
Found at i:1350079 original size:95 final size:95
Alignment explanation
Indices: 1349901--1350083 Score: 253
Period size: 95 Copynumber: 1.9 Consensus size: 95
1349891 CCATGGTAAG
* * **
1349901 AGTATCGATACCATGGTAAGAGTATCGATATCAGACAACATCGAATTTAAAATTGGTATAGATAC
1 AGTATCAATACCATGGTAAGAGTATCGATACCAGACAACATCGAAGCTAAAATTGGTATAGATAC
*
1349966 CGGAAGAGGATATTGGTACCATATAATGGT
66 CGGAAGAGGATATCGGTACCATATAATGGT
* *
1349996 AGTATCAATACCATGGTAAGGGTATCGATACCAGGA-AACATCGAAGCTAAAATTGGTATCGATA
1 AGTATCAATACCATGGTAAGAGTATCGATACCA-GACAACATCGAAGCTAAAATTGGTATAGATA
* *
1350060 CTGGAATG-GGGTATCGGTACCATA
65 CCGGAA-GAGGATATCGGTACCATA
1350084 ATATAGAAGT
Statistics
Matches: 77, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
95 74 0.96
96 3 0.04
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.26
Consensus pattern (95 bp):
AGTATCAATACCATGGTAAGAGTATCGATACCAGACAACATCGAAGCTAAAATTGGTATAGATAC
CGGAAGAGGATATCGGTACCATATAATGGT
Found at i:1362639 original size:34 final size:34
Alignment explanation
Indices: 1362596--1362773 Score: 203
Period size: 34 Copynumber: 4.9 Consensus size: 34
1362586 AAGCGATCAA
*
1362596 AATGCATATGGGTGCATTATCAGCATAAAAGAAT
1 AATGCATATGGGTGCATTATCGGCATAAAAGAAT
*
1362630 AATGCATATGGGTGCATTATTGGCATGAAATGATGACATAGCT
1 AATGCATATGGGTGCATTATCGGCAT-AAA--A-G--A-A--T
1362673 GAAATGCATATGGGTGCATTATCGGCATAAAAGAAT
1 --AATGCATATGGGTGCATTATCGGCATAAAAGAAT
*
1362709 AATGCATATGGGTGAATTATCGGCATAAAAGAAT
1 AATGCATATGGGTGCATTATCGGCATAAAAGAAT
* * *
1362743 AATGCATATGAGTGCATTATTGGCATGAAAG
1 AATGCATATGGGTGCATTATCGGCATAAAAG
1362774 GATGCCATAA
Statistics
Matches: 125, Mismatches: 8, Indels: 22
0.81 0.05 0.14
Matches are distributed among these distances:
34 84 0.67
35 3 0.02
36 1 0.01
37 1 0.01
38 2 0.02
39 1 0.01
40 1 0.01
41 2 0.02
42 1 0.01
43 1 0.01
44 3 0.02
45 25 0.20
ACGTcount: A:0.38, C:0.11, G:0.24, T:0.28
Consensus pattern (34 bp):
AATGCATATGGGTGCATTATCGGCATAAAAGAAT
Found at i:1366932 original size:14 final size:14
Alignment explanation
Indices: 1366913--1366942 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1366903 GCAAGGGTAT
1366913 CAGTACTGATACAA
1 CAGTACTGATACAA
*
1366927 CAGTACTGGTACAA
1 CAGTACTGATACAA
1366941 CA
1 CA
1366943 TCGAATTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.23, G:0.17, T:0.20
Consensus pattern (14 bp):
CAGTACTGATACAA
Found at i:1367373 original size:35 final size:35
Alignment explanation
Indices: 1367334--1367447 Score: 130
Period size: 35 Copynumber: 3.4 Consensus size: 35
1367324 ACTTTATTAG
1367334 TGGAAAGAATATTGATTATGTTATTTTTATATGTA
1 TGGAAAGAATATTGATTATGTTATTTTTATATGTA
* * *
1367369 TGGAAAGAATATT-ATGAATG-AATTTATATATGT-
1 TGGAAAGAATATTGAT-TATGTTATTTTTATATGTA
** *
1367402 T--TTATAATATTGATTATGTTATTTTTATATGTA
1 TGGAAAGAATATTGATTATGTTATTTTTATATGTA
1367435 TGGAAAGAATATT
1 TGGAAAGAATATT
1367448 ATAAATGAAT
Statistics
Matches: 61, Mismatches: 12, Indels: 12
0.72 0.14 0.14
Matches are distributed among these distances:
31 10 0.16
32 13 0.21
33 2 0.03
34 13 0.21
35 23 0.38
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (35 bp):
TGGAAAGAATATTGATTATGTTATTTTTATATGTA
Found at i:1367539 original size:34 final size:33
Alignment explanation
Indices: 1367496--1367639 Score: 117
Period size: 34 Copynumber: 3.9 Consensus size: 33
1367486 TTCATATTTA
*
1367496 AATGCATATGGGTGCACTATCGACATAAAAGAAT
1 AATGCATATGGGTGCA-TATCGGCATAAAAGAAT
* * *
1367530 AATGTATATGGGAGCATATTGGCATGAAAGATGCCATAGCT
1 AATGCATATGGGTGCATATCGGCAT-AAA-A-G--A-A--T
1367571 GAAATGCATATGGGTGCATTATCGGCATAAAAGAAT
1 --AATGCATATGGGTGCA-TATCGGCATAAAAGAAT
*
1367607 AATGCATATGGGTGCATTATTGGCATGAAAAGA
1 AATGCATATGGGTGCA-TATCGGCAT-AAAAGA
1367640 TGCCATAGCT
Statistics
Matches: 90, Mismatches: 8, Indels: 23
0.74 0.07 0.19
Matches are distributed among these distances:
33 7 0.08
34 42 0.47
35 7 0.08
36 2 0.02
38 2 0.02
39 2 0.02
41 2 0.02
42 1 0.01
43 17 0.19
44 8 0.09
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.26
Consensus pattern (33 bp):
AATGCATATGGGTGCATATCGGCATAAAAGAAT
Found at i:1367658 original size:45 final size:44
Alignment explanation
Indices: 1367607--1367874 Score: 270
Period size: 45 Copynumber: 6.5 Consensus size: 44
1367597 ATAAAAGAAT
1367607 AATGCATATGGGTGCATTATTGGCATGAAAAGATGCCATAGCTGA
1 AATGCATATGGGTGCATTATTGGCATG-AAAGATGCCATAGCTGA
1367652 AATGCATATGGGTGCATTATTGGCATGAAAGAATGCCATAGCTGA
1 AATGCATATGGGTGCATTATTGGCATGAAAG-ATGCCATAGCTGA
* *
1367697 AATGCATATGGTTGCATTATTGACAT-AAA-A-G--A-A--T--
1 AATGCATATGGGTGCATTATTGGCATGAAAGATGCCATAGCTGA
* * *
1367731 AATGCATATGAGTGCATTTTTGGCATGAAAGGATGCCATAGTTGA
1 AATGCATATGGGTGCATTATTGGCATGAAA-GATGCCATAGCTGA
* *
1367776 AATGCATATGGGTGCATTATCGACAT-AAA-A-G--A-A--T--
1 AATGCATATGGGTGCATTATTGGCATGAAAGATGCCATAGCTGA
* *
1367810 AATGCATATGGGTGTATTATTGGCATGAAAGGATGCCATAACTGA
1 AATGCATATGGGTGCATTATTGGCATGAAA-GATGCCATAGCTGA
*
1367855 AATACATATGGGTGCATTAT
1 AATGCATATGGGTGCATTAT
1367875 CGACATAAAA
Statistics
Matches: 185, Mismatches: 15, Indels: 46
0.75 0.06 0.19
Matches are distributed among these distances:
34 45 0.24
35 6 0.03
36 2 0.01
37 2 0.01
38 4 0.02
39 2 0.01
40 2 0.01
41 4 0.02
42 2 0.01
43 2 0.01
44 10 0.05
45 104 0.56
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (44 bp):
AATGCATATGGGTGCATTATTGGCATGAAAGATGCCATAGCTGA
Found at i:1367665 original size:79 final size:77
Alignment explanation
Indices: 1367495--1367685 Score: 310
Period size: 79 Copynumber: 2.5 Consensus size: 77
1367485 ATTCATATTT
* * *
1367495 AAATGCATATGGGTGCACTATCGACATAAAAGAATAATGTATATGGGAGCATATTGGCATGAAAG
1 AAATGCATATGGGTGCATTATCGGCATAAAAGAATAATGCATATGGGAGCATATTGGCATGAAAG
1367560 ATGCCATAGCTG
66 ATGCCATAGCTG
*
1367572 AAATGCATATGGGTGCATTATCGGCATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAA
1 AAATGCATATGGGTGCATTATCGGCATAAAAGAATAATGCATATGGGAGCA-TATTGGCATG-AA
1367637 AGATGCCATAGCTG
64 AGATGCCATAGCTG
* *
1367651 AAATGCATATGGGTGCATTATTGGCATGAAAGAAT
1 AAATGCATATGGGTGCATTATCGGCATAAAAGAAT
1367686 GCCATAGCTG
Statistics
Matches: 106, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
77 47 0.44
78 10 0.09
79 49 0.46
ACGTcount: A:0.37, C:0.12, G:0.25, T:0.26
Consensus pattern (77 bp):
AAATGCATATGGGTGCATTATCGGCATAAAAGAATAATGCATATGGGAGCATATTGGCATGAAAG
ATGCCATAGCTG
Found at i:1367707 original size:124 final size:124
Alignment explanation
Indices: 1367530--1367809 Score: 438
Period size: 124 Copynumber: 2.3 Consensus size: 124
1367520 ATAAAAGAAT
* *
1367530 AATGTATATGGGAGCA-TATTGGCATGAAAG-ATGCCATAGCTGAAATGCATATGGGTGCATTAT
1 AATGCATATGGGTGCATTATTGGCATGAAAGAATGCCATAGCTGAAATGCATATGGGTGCATTAT
* *
1367593 CGGCATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAAGATGCCATAGCTGA
66 CGACATAAAAGAATAATGCATATGAGTGCATTATTGGCATGAAAAGATGCCATAGCTGA
*
1367652 AATGCATATGGGTGCATTATTGGCATGAAAGAATGCCATAGCTGAAATGCATATGGTTGCATTAT
1 AATGCATATGGGTGCATTATTGGCATGAAAGAATGCCATAGCTGAAATGCATATGGGTGCATTAT
* * * *
1367717 TGACATAAAAGAATAATGCATATGAGTGCATTTTTGGCATGAAAGGATGCCATAGTTGA
66 CGACATAAAAGAATAATGCATATGAGTGCATTATTGGCATGAAAAGATGCCATAGCTGA
* * *
1367776 AATGCATATGGGTGCATTATCGACATAAAAGAAT
1 AATGCATATGGGTGCATTATTGGCATGAAAGAAT
1367810 AATGCATATG
Statistics
Matches: 144, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
122 14 0.10
123 14 0.10
124 116 0.81
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.28
Consensus pattern (124 bp):
AATGCATATGGGTGCATTATTGGCATGAAAGAATGCCATAGCTGAAATGCATATGGGTGCATTAT
CGACATAAAAGAATAATGCATATGAGTGCATTATTGGCATGAAAAGATGCCATAGCTGA
Found at i:1367735 original size:34 final size:34
Alignment explanation
Indices: 1367697--1367909 Score: 138
Period size: 34 Copynumber: 5.6 Consensus size: 34
1367687 CCATAGCTGA
*
1367697 AATGCATATGGTTGCATTATTGACATAAAAGAAT
1 AATGCATATGGGTGCATTATTGACATAAAAGAAT
* * *
1367731 AATGCATATGAGTGCATTTTTGGCATGAAAGGATGCCATAGTT
1 AATGCATATGGGTGCATTATTGACAT-AAA--A-G--A-A--T
*
1367774 GAAATGCATATGGGTGCATTATCGACATAAAAGAAT
1 --AATGCATATGGGTGCATTATTGACATAAAAGAAT
* *
1367810 AATGCATATGGGTGTATTATTGGCATGAAAGGATGCCATAACT
1 AATGCATATGGGTGCATTATTGACAT-AAA--A-G----AA-T
* *
1367853 GAAATACATATGGGTGCATTATCGACATAAAAGAAT
1 --AATGCATATGGGTGCATTATTGACATAAAAGAAT
*
1367889 AATGCATATGAGTGCATTATT
1 AATGCATATGGGTGCATTATT
1367910 TGCATGAAAG
Statistics
Matches: 139, Mismatches: 18, Indels: 44
0.69 0.09 0.22
Matches are distributed among these distances:
34 63 0.45
35 6 0.04
36 2 0.01
37 4 0.03
38 3 0.02
39 1 0.01
40 1 0.01
41 3 0.02
42 4 0.03
43 2 0.01
44 6 0.04
45 44 0.32
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.30
Consensus pattern (34 bp):
AATGCATATGGGTGCATTATTGACATAAAAGAAT
Found at i:1367735 original size:79 final size:79
Alignment explanation
Indices: 1367652--1367924 Score: 447
Period size: 79 Copynumber: 3.5 Consensus size: 79
1367642 CCATAGCTGA
* * *
1367652 AATGCATATGGGTGCATTATTGGCATGAAAGAATGCCATAGCTGAAATGCATATGGTTGCATTAT
1 AATGCATATGAGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATGGGTGCATTAT
*
1367717 TGACATAAAAGAAT
66 CGACATAAAAGAAT
* *
1367731 AATGCATATGAGTGCATTTTTGGCATGAAAGGATGCCATAGTTGAAATGCATATGGGTGCATTAT
1 AATGCATATGAGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATGGGTGCATTAT
1367796 CGACATAAAAGAAT
66 CGACATAAAAGAAT
* * * *
1367810 AATGCATATGGGTGTATTATTGGCATGAAAGGATGCCATAACTGAAATACATATGGGTGCATTAT
1 AATGCATATGAGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATGGGTGCATTAT
1367875 CGACATAAAAGAAT
66 CGACATAAAAGAAT
*
1367889 AATGCATATGAGTGCATTATTTGCATGAAAGGATGC
1 AATGCATATGAGTGCATTATTGGCATGAAAGGATGC
1367925 ATTAAGGCAT
Statistics
Matches: 179, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
79 179 1.00
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.29
Consensus pattern (79 bp):
AATGCATATGAGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATGGGTGCATTAT
CGACATAAAAGAAT
Found at i:1370858 original size:10 final size:11
Alignment explanation
Indices: 1370835--1370860 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
1370825 GGATTTAATT
1370835 AAATTTATCAA
1 AAATTTATCAA
1370846 AAATTTATCAA
1 AAATTTATCAA
1370857 AAAT
1 AAAT
1370861 AATTCAAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.35
Consensus pattern (11 bp):
AAATTTATCAA
Found at i:1372082 original size:25 final size:25
Alignment explanation
Indices: 1372048--1372102 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
1372038 GGGTTCGAGA
* *
1372048 GAAGCTAGTTATATACATTTCATTT
1 GAAGCTAGTTACAGACATTTCATTT
1372073 GAAGCTAGTTACAGACATTTCATTT
1 GAAGCTAGTTACAGACATTTCATTT
1372098 GAAGC
1 GAAGC
1372103 AGCAATTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (25 bp):
GAAGCTAGTTACAGACATTTCATTT
Found at i:1377896 original size:44 final size:46
Alignment explanation
Indices: 1377794--1377898 Score: 169
Period size: 46 Copynumber: 2.3 Consensus size: 46
1377784 TTTACCTAAT
1377794 CTCGTAAGCTTATTTTACCAATATACTTACCATTTAATCCCATAAG
1 CTCGTAAGCTTATTTTACCAATATACTTACCATTTAATCCCATAAG
* *
1377840 CTCGTAAGCTTATTTTACCAATATACTTGCCA-TT-ATTCCATAAG
1 CTCGTAAGCTTATTTTACCAATATACTTACCATTTAATCCCATAAG
*
1377884 CTCGTAAACTTATTT
1 CTCGTAAGCTTATTT
1377899 GCATGGTTAC
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
44 23 0.41
45 2 0.04
46 31 0.55
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (46 bp):
CTCGTAAGCTTATTTTACCAATATACTTACCATTTAATCCCATAAG
Found at i:1378060 original size:40 final size:40
Alignment explanation
Indices: 1378003--1378124 Score: 226
Period size: 40 Copynumber: 3.0 Consensus size: 40
1377993 ACCGTAGTGC
*
1378003 TACACATAAGGTTGTGCCCACCATATACACCAAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCAAAGTGTAT
*
1378043 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCAAAGTGTAT
1378083 TACACATAAGGTCGTGCCCACCATATACACCAAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCAAAGTGTAT
1378123 TA
1 TA
1378125 TAAACCTGCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 79 1.00
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCAAAGTGTAT
Found at i:1379179 original size:14 final size:14
Alignment explanation
Indices: 1379160--1379195 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
1379150 TTATCAACAA
1379160 AATCTGTTTTGCAG
1 AATCTGTTTTGCAG
1379174 AATCTGTTTTGCAG
1 AATCTGTTTTGCAG
*
1379188 ACTCTGTT
1 AATCTGTT
1379196 GTCCGATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.19, C:0.17, G:0.19, T:0.44
Consensus pattern (14 bp):
AATCTGTTTTGCAG
Done.