Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000786.1 Hibiscus syriacus cultivar Beakdansim tig00001524_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: 138652
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Found at i:167 original size:89 final size:86
Alignment explanation
Indices: 2--207 Score: 288
Period size: 89 Copynumber: 2.4 Consensus size: 86
1 T
** * *
2 CCCATAGGCCCCAAGGCATATTATTAGGTTGGTTCTTTCCTGTGTGCTTAGGTAGCGCTACGGAT
1 CCCATAGGCCCCAAGGCATATCCTTAGGTTGGTTCTTTCCTGTGTGCTTAGGTAACGCTACAGAT
67 CTAAGGATACCATTGGGTAGG
66 CTAAGGATACCATTGGGTAGG
**
88 CCCATAGGCCCCAAGGCATATCCTTAGGTTGGTTTCTCTTTGTTGTGTGCTTAGGGTAAC-CTAC
1 CCCATAGGCCCCAAGGCATATCCTTAGGTTGG--T-TCTTTCCTGTGTGCTTA-GGTAACGCTAC
*
152 AGATCTAAGGATACCATTGGTTAGG
62 AGATCTAAGGATACCATTGGGTAGG
* *
177 CCCATAGGCCCCAAAGAATATCCTTAGGTTG
1 CCCATAGGCCCCAAGGCATATCCTTAGGTTG
208 TCCCCTGCTA
Statistics
Matches: 107, Mismatches: 9, Indels: 5
0.88 0.07 0.04
Matches are distributed among these distances:
86 30 0.28
88 1 0.01
89 71 0.66
90 5 0.05
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.30
Consensus pattern (86 bp):
CCCATAGGCCCCAAGGCATATCCTTAGGTTGGTTCTTTCCTGTGTGCTTAGGTAACGCTACAGAT
CTAAGGATACCATTGGGTAGG
Found at i:2891 original size:360 final size:361
Alignment explanation
Indices: 2034--3022 Score: 1308
Period size: 360 Copynumber: 2.7 Consensus size: 361
2024 ATCAGATTTC
* * * * *
2034 ATTATACC-ACTTAATATTGATACTATATTTGAACCATAGATATTGTATGAAC-AGTATTGGTAG
1 ATTACACCAACTTAATATTGATACTATA-TTGAACTATCGACATTGTATGAACAATTATTGGTA-
* **
2097 T-CATTCAATGGTATGGATACCATTAGTAT-AAATATGTAAA-TATACAATTAGTCCCTGGATTA
64 TCCATTCAATGGTATCGATACCATTAGTATAAAATATAAAAATTATACAATTAGTCCCTGGATTA
* **
2159 TGTATTACTCATGCTAAGACCTTTTAAGTAGTGATATAGTATGTAATTGTTAATAGAATCGGTCT
129 TGTATTACTCATGCTAAGACCTTTTAAGTAGTGATA-AGTATGTAACTGTTAATAGAATTAGTCT
* * * *** *
2224 TCAGAATAATTTATTACATAATCCCTAATCTTTTATAATTACATGCCCATCCCTAAAAGTTTGTA
193 TTAGAATAATTTACTATATAATCCCTAATC--TTAT-ATTACATGTTAATCCCTAAAAGTTTGAA
* * * *
2289 AAGTATTAATTTGGTCCTTGTCATATCAAAGTATAACATTAGTAATATGATGATATATATAATTT
255 AAGTCTTAAATTAGTCCTTGTCATATCAAAGTATAACATTAGCAATATGATGA-ATATATAATTT
2354 AAAATCAATAATTAAATGTTCGTTTAGCAAGGTATGATCAATT
319 AAAATCAATAATTAAATGTTCGTTTAGCAAGGTATGATCAATT
*
2397 ATTACACCAACTTAATATTGATATTATATTCGAACTATCGATC-TTGTATGAACAATTATTGGTA
1 ATTACACCAACTTAATATTGATACTATATT-GAACTATCGA-CATTGTATGAACAATTATTGGTA
* * * * * *
2461 CCCATTCAACGGTATTGATACCAATAGTATAAAATATACAAATTATACAATTAGTCCCTGGATCA
64 TCCATTCAATGGTATCGATACCATTAGTATAAAATATAAAAATTATACAATTAGTCCCTGGATTA
2526 TGTATTACTCATGCTAAGACCTTTTAAGTAGTGATACAGTATGTAA-T-TT-ATAGAATTAGTCT
129 TGTATTACTCATGCTAAGACCTTTTAAGTAGTGATA-AGTATGTAACTGTTAATAGAATTAGTCT
2588 TTAGAATAATTTACTATATAATCCCTAATC-T-T-TTACATGTTAATCCCTAAAAGTTTGAAAAG
193 TTAGAATAATTTACTATATAATCCCTAATCTTATATTACATGTTAATCCCTAAAAGTTTGAAAAG
* ** *
2650 TCTTAAATTAGTCCTTGTCATATCAAATTAAAGTATAGCATTAGCGTTATGATG-ATATATGATT
258 TCTTAAATTAGTCCTTGTCATATC-----AAAGTATAACATTAGCAATATGATGAATATATAATT
* * *
2714 TAAAATGAGTAATTAAATGTTTGTTTAGCAAGGTATGATCAATT
318 TAAAATCAATAATTAAATGTTCGTTTAGCAAGGTATGATCAATT
*
2758 ATTACACCAACTTAATATTGATACTATATTGAACTATCGACATTGTATGAACAATTATTTGTATC
1 ATTACACCAACTTAATATTGATACTATATTGAACTATCGACATTGTATGAACAATTATTGGTATC
* * *
2823 CATTCAATAGTATCGATAACATTAGTATAAAATATAAAAATTATACAATTAGTCCCTAGATTATG
66 CATTCAATGGTATCGATACCATTAGTATAAAATATAAAAATTATACAATTAGTCCCTGGATTATG
*
2888 TATTACTCATGCTAAGACCTTTTAAGTAGTGAT-A-TATGTAACTGTTAATGGAATTAGTCTTTA
131 TATTACTCATGCTAAGACCTTTTAAGTAGTGATAAGTATGTAACTGTTAATAGAATTAGTCTTTA
*
2951 GAATAA-TTACTATACAATCCCTAATCTTTTAGATAATTACATGTTAATCCCTAAAAGTTTGAAA
196 GAATAATTTACTATATAATCCCTAATC--TT--AT-ATTACATGTTAATCCCTAAAAGTTTGAAA
3015 AGTCTTAA
256 AGTCTTAA
3023 TGTAACACCC
Statistics
Matches: 555, Mismatches: 47, Indels: 44
0.86 0.07 0.07
Matches are distributed among these distances:
357 7 0.01
358 49 0.09
359 22 0.04
360 143 0.26
361 80 0.14
362 1 0.00
363 30 0.05
364 74 0.13
365 37 0.07
366 10 0.02
367 102 0.18
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.38
Consensus pattern (361 bp):
ATTACACCAACTTAATATTGATACTATATTGAACTATCGACATTGTATGAACAATTATTGGTATC
CATTCAATGGTATCGATACCATTAGTATAAAATATAAAAATTATACAATTAGTCCCTGGATTATG
TATTACTCATGCTAAGACCTTTTAAGTAGTGATAAGTATGTAACTGTTAATAGAATTAGTCTTTA
GAATAATTTACTATATAATCCCTAATCTTATATTACATGTTAATCCCTAAAAGTTTGAAAAGTCT
TAAATTAGTCCTTGTCATATCAAAGTATAACATTAGCAATATGATGAATATATAATTTAAAATCA
ATAATTAAATGTTCGTTTAGCAAGGTATGATCAATT
Found at i:3797 original size:30 final size:30
Alignment explanation
Indices: 3761--3832 Score: 117
Period size: 30 Copynumber: 2.4 Consensus size: 30
3751 CCCGCAGGAC
*
3761 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGCAA
3791 CTATCCAGAGGTCATAAAGATCCTCGGCAA
1 CTATCCAGAGGTCATAAAGATCCTCGGCAA
* *
3821 CTGTCCATAGGT
1 CTATCCAGAGGT
3833 TTCGAAGAAC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.24
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGCAA
Found at i:3907 original size:31 final size:32
Alignment explanation
Indices: 3870--3987 Score: 143
Period size: 32 Copynumber: 3.8 Consensus size: 32
3860 TTTCCTTAGA
3870 ACATAGGT-ATACTGTCCATATGTCTCGAAAG
1 ACATAGGTAATACTGTCCATATGTCTCGAAAG
* * ** *
3901 ACATAGGTAATTCTATCCATATGTTCTTTATA-
1 ACATAGGTAATACTGTCCATATG-TCTCGAAAG
*
3933 ACATAGGT-ATATTGTCCATATGTCTCGAAAG
1 ACATAGGTAATACTGTCCATATGTCTCGAAAG
*
3964 ACATAGGTAATTCTGTCCATATGT
1 ACATAGGTAATACTGTCCATATGT
3988 TCCTTAGAAC
Statistics
Matches: 70, Mismatches: 13, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
30 5 0.07
31 27 0.39
32 33 0.47
33 5 0.07
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (32 bp):
ACATAGGTAATACTGTCCATATGTCTCGAAAG
Found at i:3949 original size:63 final size:63
Alignment explanation
Indices: 3861--4007 Score: 258
Period size: 63 Copynumber: 2.3 Consensus size: 63
3851 ACTGTCCTAT
3861 TTCCTTAGAACATAGGTATACTGTCCATATGTCTCGAAAGACATAGGTAATTCTATCCATATG
1 TTCCTTAGAACATAGGTATACTGTCCATATGTCTCGAAAGACATAGGTAATTCTATCCATATG
* * * *
3924 TTCTTTATAACATAGGTATATTGTCCATATGTCTCGAAAGACATAGGTAATTCTGTCCATATG
1 TTCCTTAGAACATAGGTATACTGTCCATATGTCTCGAAAGACATAGGTAATTCTATCCATATG
3987 TTCCTTAGAACATAGGTATAC
1 TTCCTTAGAACATAGGTATAC
4008 CCTCAACTCT
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 77 1.00
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (63 bp):
TTCCTTAGAACATAGGTATACTGTCCATATGTCTCGAAAGACATAGGTAATTCTATCCATATG
Found at i:4000 original size:32 final size:32
Alignment explanation
Indices: 3852--4004 Score: 140
Period size: 32 Copynumber: 4.9 Consensus size: 32
3842 CCTAGGTGAA
*
3852 CTGTCC-TAT-TTCCTTAGAACATAGGT-ATA
1 CTGTCCATATGTTCCTTAGAACATAGGTAATT
***
3881 CTGTCCATATGTCTCGAAAG-ACATAGGTAATT
1 CTGTCCATATGT-TCCTTAGAACATAGGTAATT
* * *
3913 CTATCCATATGTTCTTTATAACATAGGT-ATAT
1 CTGTCCATATGTTCCTTAGAACATAGGTAAT-T
***
3945 -TGTCCATATGTCTCGAAAG-ACATAGGTAATT
1 CTGTCCATATGT-TCCTTAGAACATAGGTAATT
3976 CTGTCCATATGTTCCTTAGAACATAGGTA
1 CTGTCCATATGTTCCTTAGAACATAGGTA
4005 TACCCTCAAC
Statistics
Matches: 97, Mismatches: 17, Indels: 17
0.74 0.13 0.13
Matches are distributed among these distances:
29 6 0.06
30 3 0.03
31 37 0.38
32 51 0.53
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (32 bp):
CTGTCCATATGTTCCTTAGAACATAGGTAATT
Found at i:20372 original size:17 final size:17
Alignment explanation
Indices: 20352--20388 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
20342 TTTTTTCAAC
*
20352 TTTTTATCTTTTTGCCT
1 TTTTTATATTTTTGCCT
*
20369 TTTTTATATTTTTTCCT
1 TTTTTATATTTTTGCCT
20386 TTT
1 TTT
20389 CTTTTTGATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.08, C:0.14, G:0.03, T:0.76
Consensus pattern (17 bp):
TTTTTATATTTTTGCCT
Found at i:21590 original size:26 final size:26
Alignment explanation
Indices: 21560--21612 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
21550 GTGTGCCTTG
21560 TGGTGCATATATCACATGTGCAACTT
1 TGGTGCATATATCACATGTGCAACTT
21586 TGGTGCATATATCACATGTGCAACTT
1 TGGTGCATATATCACATGTGCAACTT
21612 T
1 T
21613 TATTAGTATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (26 bp):
TGGTGCATATATCACATGTGCAACTT
Found at i:23398 original size:29 final size:29
Alignment explanation
Indices: 23363--23444 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
23353 AAACTAAATT
*
23363 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
23392 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
23421 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
23445 GTTAGGTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:28162 original size:29 final size:29
Alignment explanation
Indices: 28127--28208 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
28117 AAACTAAATT
*
28127 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
28156 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
28185 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
28209 GTTAGGTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:30937 original size:14 final size:14
Alignment explanation
Indices: 30918--30951 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
30908 GGTTGGGCTA
**
30918 AACATAAATGAACG
1 AACATAAACAAACG
30932 AACATAAACAAACG
1 AACATAAACAAACG
30946 AACATA
1 AACATA
30952 TTAGAGAACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.62, C:0.18, G:0.09, T:0.12
Consensus pattern (14 bp):
AACATAAACAAACG
Found at i:32955 original size:24 final size:23
Alignment explanation
Indices: 32888--32957 Score: 68
Period size: 24 Copynumber: 2.9 Consensus size: 23
32878 CATTCGGTAA
**
32888 TATGTTCGTTCATTTATATACATT
1 TATG-TCGTTCATTTATATTTATT
* * *
32912 TATGTCTATTAATTTATATTTGTT
1 TATGTC-GTTCATTTATATTTATT
32936 TATGTGCGTTCATTTATATTTA
1 TATGT-CGTTCATTTATATTTA
32958 GCCCAATCTC
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
23 2 0.06
24 33 0.92
25 1 0.03
ACGTcount: A:0.24, C:0.09, G:0.10, T:0.57
Consensus pattern (23 bp):
TATGTCGTTCATTTATATTTATT
Found at i:33159 original size:23 final size:23
Alignment explanation
Indices: 33128--33208 Score: 72
Period size: 23 Copynumber: 3.5 Consensus size: 23
33118 TTTTCATTTA
33128 TGTTCGTTTATATTCATTTATTG
1 TGTTCGTTTATATTCATTTATTG
* ** *
33151 TGTTTGTTTACGTTCGTTTATTG
1 TGTTCGTTTATATTCATTTATTG
* * * *
33174 TATTCGTTTATGTTCGTTCATTTG
1 TGTTCGTTTATATTCATTTA-TTG
*
33198 TGTTCATTTAT
1 TGTTCGTTTAT
33209 CATTTAAATG
Statistics
Matches: 47, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
23 35 0.74
24 12 0.26
ACGTcount: A:0.14, C:0.10, G:0.16, T:0.60
Consensus pattern (23 bp):
TGTTCGTTTATATTCATTTATTG
Found at i:36143 original size:18 final size:19
Alignment explanation
Indices: 36103--36145 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
36093 TTATTTAACC
* *
36103 ATATATATAATATTCTTTC
1 ATATATATAATATTATTTA
*
36122 ATAT-TATAATGTTATTTA
1 ATATATATAATATTATTTA
36140 ATATAT
1 ATATAT
36146 CAAATACAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (19 bp):
ATATATATAATATTATTTA
Found at i:36562 original size:158 final size:156
Alignment explanation
Indices: 36361--36740 Score: 399
Period size: 157 Copynumber: 2.4 Consensus size: 156
36351 AAAGGGTAAA
* * * *
36361 AATTG-AAGTTACAT-TGGTATTCTATTATGGTATATGAGCATGTGGTTCAAATTTAGTAAAAAA
1 AATTGAAAG-TACATAT-GTATTCTACTATGATTTAGGAGCATGTGGTTCAAATTTAGTAAAAAA
* * * * * *
36424 AACATTTAAAATAAATCACAAATTGAAGGAATAATGAGATTATGAAAATTTGAAGGACTAAACTT
64 AAC--TTAAAATAAATCACAAATTGAAGAAATAAGGAGATTATAAAAAATTAAAAGACTAAA-TT
36489 -AAAAATAAAAAAATTGTTATAAAAAACAGG
126 GAAAAATAAAAAAATTGTTATAAAAAACAGG
*
36519 AATTGAAAGTACATATGTATTCTACTATGATTTAGGAGCATGTGGCTCAAA-TTAGCTAAAAAGA
1 AATTGAAAGTACATATGTATTCTACTATGATTTAGGAGCATGTGGTTCAAATTTAG-TAAAAA-A
* * **
36583 GACTTAAAATAAATGATGAATTGAAGAAATAAGGAGATTATAAAAAATTAAAAGACTAAATTGAA
64 AACTTAAAATAAATCACAAATTGAAGAAATAAGGAGATTATAAAAAATTAAAAGACTAAATTGAA
* **** * *
36648 AAATGAATTTTTTGTTATCAAAAAGAGG
129 AAATAAAAAAATTGTTATAAAAAACAGG
* * * * * * * *
36676 AATTGAAAGTACACATTTATTCTACTATGTTTTAGGGGTATGTGATTCAACTTTGGTAAAAAAAA
1 AATTGAAAGTACATATGTATTCTACTATGATTTAGGAGCATGTGGTTCAAATTTAGTAAAAAAAA
36741 TAGACTTAGA
Statistics
Matches: 184, Mismatches: 32, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
156 4 0.02
157 124 0.67
158 49 0.27
159 7 0.04
ACGTcount: A:0.46, C:0.07, G:0.16, T:0.31
Consensus pattern (156 bp):
AATTGAAAGTACATATGTATTCTACTATGATTTAGGAGCATGTGGTTCAAATTTAGTAAAAAAAA
CTTAAAATAAATCACAAATTGAAGAAATAAGGAGATTATAAAAAATTAAAAGACTAAATTGAAAA
ATAAAAAAATTGTTATAAAAAACAGG
Found at i:37618 original size:24 final size:24
Alignment explanation
Indices: 37591--37649 Score: 118
Period size: 24 Copynumber: 2.5 Consensus size: 24
37581 CACCAGATGC
37591 TAATATTTTAGATTTTCTTTGTTG
1 TAATATTTTAGATTTTCTTTGTTG
37615 TAATATTTTAGATTTTCTTTGTTG
1 TAATATTTTAGATTTTCTTTGTTG
37639 TAATATTTTAG
1 TAATATTTTAG
37650 TTATTGGTCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.24, C:0.03, G:0.12, T:0.61
Consensus pattern (24 bp):
TAATATTTTAGATTTTCTTTGTTG
Found at i:42200 original size:60 final size:58
Alignment explanation
Indices: 42093--42225 Score: 139
Period size: 60 Copynumber: 2.3 Consensus size: 58
42083 AAAAGATATC
* * * *
42093 ATTTAATTTGAATATTAGTAGGATAATTATTCTTTTGAATATGTCAAACTAAATAAGT
1 ATTTAATTTGAATATTAGAAAGATAATTATACTTTTAAATATGTCAAACTAAATAAGT
* *
42151 ATTTAACTTTGAATATTA-AAAGATAAGTATATACTTTTAAATATTTCAAATTAAAATAA-T
1 ATTTAA-TTTGAATATTAGAAAGATAA-T-TATACTTTTAAATATGTCAAACT-AAATAAGT
*
42211 ATAT-ATTT-AATATTA
1 ATTTAATTTGAATATTA
42226 AATAGTAAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
57 7 0.11
58 15 0.23
59 13 0.20
60 23 0.36
61 6 0.09
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.44
Consensus pattern (58 bp):
ATTTAATTTGAATATTAGAAAGATAATTATACTTTTAAATATGTCAAACTAAATAAGT
Found at i:42277 original size:33 final size:31
Alignment explanation
Indices: 42178--42270 Score: 77
Period size: 33 Copynumber: 3.0 Consensus size: 31
42168 AAAAGATAAG
*
42178 TATATACTTTTAAATATT-TCAAATTAAAATAA
1 TATATACTTTT-AATATTAT-AAATTAAAAGAA
* *
42210 TATATA--TTTAATATTA-AATAGTAAAAGGAG
1 TATATACTTTTAATATTATAA-ATTAAAA-GAA
*
42240 TTTATACTTTTGAATATTATAAATTAAAAGA
1 TATATACTTTT-AATATTATAAATTAAAAGA
42271 TATTTATTAT
Statistics
Matches: 49, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
28 2 0.04
29 12 0.24
30 9 0.18
32 11 0.22
33 13 0.27
34 2 0.04
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.42
Consensus pattern (31 bp):
TATATACTTTTAATATTATAAATTAAAAGAA
Found at i:43449 original size:4 final size:4
Alignment explanation
Indices: 43440--43509 Score: 54
Period size: 4 Copynumber: 17.0 Consensus size: 4
43430 GTTTTGAATA
* * *
43440 ATTT ATTT ATTT ATTT A-AT ATTT -TTT GATTG ATTT ATTT ATTT AGTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT -ATTT ATTT ATTT ATTT ATTT
*
43487 GTTT CAAATTT ATTT ATTT ATTT
1 ATTT ---ATTT ATTT ATTT ATTT
43510 CGAAATTATT
Statistics
Matches: 52, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
3 5 0.10
4 42 0.81
5 2 0.04
7 3 0.06
ACGTcount: A:0.26, C:0.01, G:0.06, T:0.67
Consensus pattern (4 bp):
ATTT
Found at i:43467 original size:31 final size:30
Alignment explanation
Indices: 43423--43483 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 30
43413 GTTTTAAAAT
43423 TTTAATTGTTTTGAATAATTTATTTATTTA
1 TTTAATTGTTTTGAATAATTTATTTATTTA
* * *
43453 TTTAATATTTTTTGATTGATTTATTTATTTA
1 TTTAAT-TGTTTTGAATAATTTATTTATTTA
43484 GTTGTTTCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 6 0.22
31 21 0.78
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.66
Consensus pattern (30 bp):
TTTAATTGTTTTGAATAATTTATTTATTTA
Found at i:43501 original size:27 final size:27
Alignment explanation
Indices: 43439--43509 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
43429 TGTTTTGAAT
**
43439 AATTTATTTATTTATTTAATATTTTTT
1 AATTTATTTATTTATTTAATATTTTCA
* * *
43466 GATTGATTTATTTATTTAGT-TGTTTCA
1 AATTTATTTATTTATTTAATAT-TTTCA
43493 AATTTATTTATTTATTT
1 AATTTATTTATTTATTT
43510 CGAAATTATT
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
26 1 0.03
27 35 0.97
ACGTcount: A:0.27, C:0.01, G:0.06, T:0.66
Consensus pattern (27 bp):
AATTTATTTATTTATTTAATATTTTCA
Found at i:43510 original size:19 final size:19
Alignment explanation
Indices: 43439--43531 Score: 74
Period size: 19 Copynumber: 5.1 Consensus size: 19
43429 TGTTTTGAAT
43439 AATTTATTTATTTATTT-A
1 AATTTATTTATTTATTTCA
*
43457 ATATTT-TTTGATTGATTT--
1 A-ATTTATTT-ATTTATTTCA
* *
43475 -ATTTATTTAGTTGTTTCA
1 AATTTATTTATTTATTTCA
43493 AATTTATTTATTTATTTCGA
1 AATTTATTTATTTATTTC-A
43513 AA-TTA-TTAGTTTATTTCA
1 AATTTATTTA-TTTATTTCA
43531 A
1 A
43532 GAGATATGAA
Statistics
Matches: 61, Mismatches: 6, Indels: 16
0.73 0.07 0.19
Matches are distributed among these distances:
16 9 0.15
17 3 0.05
18 9 0.15
19 37 0.61
20 3 0.05
ACGTcount: A:0.29, C:0.03, G:0.06, T:0.61
Consensus pattern (19 bp):
AATTTATTTATTTATTTCA
Found at i:46269 original size:2 final size:2
Alignment explanation
Indices: 46262--46338 Score: 154
Period size: 2 Copynumber: 38.5 Consensus size: 2
46252 ATTTTAAAAC
46262 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
46304 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
46339 CCCATATCCC
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 75 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:46527 original size:12 final size:12
Alignment explanation
Indices: 46502--46594 Score: 66
Period size: 12 Copynumber: 7.8 Consensus size: 12
46492 ACGGAGATAT
* *
46502 CAGAAATCAAAA
1 CAGAATTCAGAA
46514 CAGAATTCAGAA
1 CAGAATTCAGAA
*
46526 CA-TATATCAGAA
1 CAGAAT-TCAGAA
*
46538 CAGAATCCAGATA
1 CAGAATTCAGA-A
*
46551 -AGAAATCAGAA
1 CAGAATTCAGAA
**
46562 CAGAATTCAGGT
1 CAGAATTCAGAA
*
46574 CA-TATATCAGAA
1 CAGAAT-TCAGAA
46586 CAGAATTCA
1 CAGAATTCA
46595 AGTCGAAAAT
Statistics
Matches: 61, Mismatches: 14, Indels: 12
0.70 0.16 0.14
Matches are distributed among these distances:
11 5 0.08
12 51 0.84
13 5 0.08
ACGTcount: A:0.51, C:0.17, G:0.14, T:0.18
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:46534 original size:24 final size:24
Alignment explanation
Indices: 46507--46594 Score: 106
Period size: 24 Copynumber: 3.7 Consensus size: 24
46497 GATATCAGAA
*
46507 ATCAAAACAGAATTCAGAACATAT
1 ATCAGAACAGAATTCAGAACATAT
* * *
46531 ATCAGAACAGAATCCAGATA-AGAA
1 ATCAGAACAGAATTCAGA-ACATAT
**
46555 ATCAGAACAGAATTCAGGTCATAT
1 ATCAGAACAGAATTCAGAACATAT
46579 ATCAGAACAGAATTCA
1 ATCAGAACAGAATTCA
46595 AGTCGAAAAT
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
24 52 0.98
25 1 0.02
ACGTcount: A:0.50, C:0.17, G:0.14, T:0.19
Consensus pattern (24 bp):
ATCAGAACAGAATTCAGAACATAT
Found at i:47206 original size:19 final size:17
Alignment explanation
Indices: 47157--47199 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
47147 GAGTTTCCAA
*
47157 ACTTATTCCAATCTCTT
1 ACTTAATCCAATCTCTT
47174 ACTTAATCCAATCTCTT
1 ACTTAATCCAATCTCTT
47191 ACTTAATCC
1 ACTTAATCC
47200 TCAATCTTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.28, C:0.30, G:0.00, T:0.42
Consensus pattern (17 bp):
ACTTAATCCAATCTCTT
Found at i:49046 original size:10 final size:10
Alignment explanation
Indices: 49033--49061 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
49023 GCTCAACTGT
49033 GGTCAACGGC
1 GGTCAACGGC
49043 GGTCAACGGC
1 GGTCAACGGC
49053 GGTCAACGG
1 GGTCAACGG
49062 GTTGGGTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.21, C:0.28, G:0.41, T:0.10
Consensus pattern (10 bp):
GGTCAACGGC
Found at i:51211 original size:26 final size:26
Alignment explanation
Indices: 51175--51245 Score: 133
Period size: 26 Copynumber: 2.7 Consensus size: 26
51165 TGCTTCAATC
*
51175 CATCTTTACATCCATTTTTTTTGTTA
1 CATCTTTACATCCATTTTTTTGGTTA
51201 CATCTTTACATCCATTTTTTTGGTTA
1 CATCTTTACATCCATTTTTTTGGTTA
51227 CATCTTTACATCCATTTTT
1 CATCTTTACATCCATTTTT
51246 AGAATCCAAT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.20, C:0.21, G:0.04, T:0.55
Consensus pattern (26 bp):
CATCTTTACATCCATTTTTTTGGTTA
Found at i:51417 original size:30 final size:30
Alignment explanation
Indices: 51382--51444 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
51372 ATGATGATAT
*
51382 TTGAATTTTATTTTGACTGCATTATTTTAA
1 TTGAATTTTAATTTGACTGCATTATTTTAA
*
51412 TTGAATTTTAATTTGACTGCATTATTTTTA
1 TTGAATTTTAATTTGACTGCATTATTTTAA
51442 TTG
1 TTG
51445 CAAGGTAGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.06, G:0.11, T:0.57
Consensus pattern (30 bp):
TTGAATTTTAATTTGACTGCATTATTTTAA
Found at i:62037 original size:23 final size:22
Alignment explanation
Indices: 62001--62062 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 22
61991 ACTAGGGGCA
62001 CATAGAATTTGTCCCGAAGGACCG
1 CATAGAA--TGTCCCGAAGGACCG
* *
62025 CGTAGAAATGTCCCAAAGGACCG
1 CATAG-AATGTCCCGAAGGACCG
62048 CATAGAA-GTCCCGAA
1 CATAGAATGTCCCGAA
62063 AGACTACTCC
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
21 7 0.21
22 2 0.06
23 18 0.55
24 4 0.12
25 2 0.06
ACGTcount: A:0.34, C:0.26, G:0.24, T:0.16
Consensus pattern (22 bp):
CATAGAATGTCCCGAAGGACCG
Found at i:64308 original size:19 final size:20
Alignment explanation
Indices: 64284--64336 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
64274 AATGCATTTT
*
64284 ATGCATCGATGCAC-ATACC
1 ATGCATCGATGCACAAGACC
64303 ATGCATCGATGCACAAGACC
1 ATGCATCGATGCACAAGACC
*
64323 ATGCATGGATGCAC
1 ATGCATCGATGCAC
64337 TCAGGTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 14 0.45
20 17 0.55
ACGTcount: A:0.32, C:0.28, G:0.21, T:0.19
Consensus pattern (20 bp):
ATGCATCGATGCACAAGACC
Found at i:64624 original size:10 final size:10
Alignment explanation
Indices: 64593--64627 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
64583 GAAGCCATTG
64593 ATCAACAACA
1 ATCAACAACA
**
64603 AGAAACAACA
1 ATCAACAACA
64613 ATCAACAACA
1 ATCAACAACA
64623 ATCAA
1 ATCAA
64628 AGAGAGAATC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.63, C:0.26, G:0.03, T:0.09
Consensus pattern (10 bp):
ATCAACAACA
Found at i:65619 original size:140 final size:139
Alignment explanation
Indices: 65368--65646 Score: 540
Period size: 140 Copynumber: 2.0 Consensus size: 139
65358 GGTCTAAAAT
65368 ATGGAGAGATCATTCCAAACGAGAAGCTTGTGAGGAAGTTAGTTTACTCACTTCCAAATCATGGC
1 ATGGAGAGATCATTCCAAACGAGAAGCTTGTGAGGAAGTTAGTTTACTCACTTCCAAATCATGGC
65433 AATCCAAGAAGGCGACAATCATCGAGGCTAAGAACCTAAAGTCCTTAACTCTTGAAGTGCTAATT
66 AATCCAAGAAGGCGACAATCATCGAGGCTAAGAACCTAAAGTCCTTAACTCTTGAAGTGCTAATT
65498 GGTTCTCCC
131 GGTTCTCCC
*
65507 ATGGAGAGATCATTCCAAACGAGAAGCTTGTGAGGAAGTTCGTTTACTCACTTCCAAAATCATGG
1 ATGGAGAGATCATTCCAAACGAGAAGCTTGTGAGGAAGTTAGTTTACTCACTTCC-AAATCATGG
65572 CAATCCAAGAAGGCGACAATCATCGAGGCTAAGAACCTAAAGTCCTTAACTCTTGAAGTGCTAAT
65 CAATCCAAGAAGGCGACAATCATCGAGGCTAAGAACCTAAAGTCCTTAACTCTTGAAGTGCTAAT
65637 TGGTTCTCCC
130 TGGTTCTCCC
65647 CTCACTCATA
Statistics
Matches: 138, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
139 54 0.39
140 84 0.61
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (139 bp):
ATGGAGAGATCATTCCAAACGAGAAGCTTGTGAGGAAGTTAGTTTACTCACTTCCAAATCATGGC
AATCCAAGAAGGCGACAATCATCGAGGCTAAGAACCTAAAGTCCTTAACTCTTGAAGTGCTAATT
GGTTCTCCC
Found at i:70644 original size:12 final size:13
Alignment explanation
Indices: 70608--70646 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
70598 AAAACTATAC
*
70608 ATATTATTTACAA
1 ATATTATTTTCAA
70621 ATATTATTTTCAA
1 ATATTATTTTCAA
70634 ATATT-TTTTCAA
1 ATATTATTTTCAA
70646 A
1 A
70647 ACCTTGCCCA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
12 8 0.32
13 17 0.68
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (13 bp):
ATATTATTTTCAA
Found at i:72835 original size:20 final size:20
Alignment explanation
Indices: 72806--72843 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
72796 TTTTAAAGTG
72806 ATGCACCGATACACCAATCC
1 ATGCACCGATACACCAATCC
* *
72826 ATGCATCGATGCACCAAT
1 ATGCACCGATACACCAAT
72844 TAATTTTTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.34, G:0.13, T:0.18
Consensus pattern (20 bp):
ATGCACCGATACACCAATCC
Found at i:72923 original size:26 final size:26
Alignment explanation
Indices: 72890--72955 Score: 132
Period size: 26 Copynumber: 2.5 Consensus size: 26
72880 TGCACATACC
72890 ATGCATCGATGCACTCAGTGCATTTG
1 ATGCATCGATGCACTCAGTGCATTTG
72916 ATGCATCGATGCACTCAGTGCATTTG
1 ATGCATCGATGCACTCAGTGCATTTG
72942 ATGCATCGATGCAC
1 ATGCATCGATGCAC
72956 AAGACCATGC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (26 bp):
ATGCATCGATGCACTCAGTGCATTTG
Found at i:72995 original size:72 final size:71
Alignment explanation
Indices: 72863--72996 Score: 162
Period size: 72 Copynumber: 1.9 Consensus size: 71
72853 AAACATCGAA
* * * * **
72863 TGCATTTTATGCATTGATGCACATACCATGCATCGATGCACTCAGTGCATTTGATGCATCGATGC
1 TGCATTTGATGCATCGATGCACAGACCATGCATCGATGCACTCAGTGCATTTAAAACATCGATGC
72928 ACTCAG
66 ACTCAG
* **
72934 TGCATTTGATGCATCGATGCACAAGACCATGCATGGATGCACTCAG-GTTTTTCAAAACATCGA
1 TGCATTTGATGCATCGATGCAC-AGACCATGCATCGATGCACTCAGTGCATTT-AAAACATCGA
72997 ATACATTTTA
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
71 24 0.46
72 28 0.54
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (71 bp):
TGCATTTGATGCATCGATGCACAGACCATGCATCGATGCACTCAGTGCATTTAAAACATCGATGC
ACTCAG
Found at i:80256 original size:53 final size:53
Alignment explanation
Indices: 80157--80259 Score: 136
Period size: 53 Copynumber: 1.9 Consensus size: 53
80147 ACTATATTAC
* * * * *
80157 ATTTTTCATTTAAGTACTCAAAGTAATTTTTGTTAAAAGTAGTATTTAAACAT
1 ATTTGTCATCTAAGTACTAAAAGTAATTTTTATTAAAAGTAATATTTAAACAT
*
80210 ATTTGTCATCTAAGTACTAAAAGTATTTTTTATTAAAA-TAAATATTTAAA
1 ATTTGTCATCTAAGTACTAAAAGTAATTTTTATTAAAAGT-AATATTTAAA
80260 GTATACTGTA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
52 1 0.02
53 42 0.98
ACGTcount: A:0.41, C:0.07, G:0.08, T:0.45
Consensus pattern (53 bp):
ATTTGTCATCTAAGTACTAAAAGTAATTTTTATTAAAAGTAATATTTAAACAT
Found at i:84528 original size:13 final size:13
Alignment explanation
Indices: 84510--84534 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
84500 GCCATATAGC
84510 TATATATATATAA
1 TATATATATATAA
84523 TATATATATATA
1 TATATATATATA
84535 TAGCAGAAGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TATATATATATAA
Found at i:86149 original size:8 final size:8
Alignment explanation
Indices: 86136--86300 Score: 53
Period size: 8 Copynumber: 20.8 Consensus size: 8
86126 TGGGTCTTCG
86136 GTCATTCA
1 GTCATTCA
**
86144 GTCATTTG
1 GTCATTCA
*
86152 GTCATTCG
1 GTCATTCA
*
86160 GTCATCCA
1 GTCATTCA
86168 GTCATT-A
1 GTCATTCA
*
86175 GGTTATTC-
1 -GTCATTCA
86183 GATCATTCA
1 G-TCATTCA
* *
86192 ATAATTCA
1 GTCATTCA
86200 GTCATT-A
1 GTCATTCA
86207 GGTCATT-A
1 -GTCATTCA
**
86215 CGTCATTTG
1 -GTCATTCA
86224 GTCATTC-
1 GTCATTCA
*
86231 GATCATT-T
1 G-TCATTCA
*
86239 GTCATTCG
1 GTCATTCA
**
86247 GTCATTTT
1 GTCATTCA
86255 GTCATTC-
1 GTCATTCA
86262 GATCATTC-
1 G-TCATTCA
86270 GTTCATT-A
1 G-TCATTCA
86278 GGTCATTC-
1 -GTCATTCA
*
86286 GATCAGTCA
1 G-TCATTCA
86295 GTCATT
1 GTCATT
86301 GGGGCATTCA
Statistics
Matches: 120, Mismatches: 22, Indels: 30
0.70 0.13 0.17
Matches are distributed among these distances:
7 11 0.09
8 107 0.89
9 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.41
Consensus pattern (8 bp):
GTCATTCA
Found at i:86159 original size:24 final size:24
Alignment explanation
Indices: 86108--86722 Score: 187
Period size: 24 Copynumber: 25.5 Consensus size: 24
86098 CTCATAGGTT
** *
86108 ATTCGGTCATTCAACCATTGGGTC
1 ATTCGGTCATTCAGTCATTTGGTC
86132 -TTCGGTCATTCAGTCATTTGGTC
1 ATTCGGTCATTCAGTCATTTGGTC
* * *
86155 ATTCGGTCATCCAGTCATTAGGTT
1 ATTCGGTCATTCAGTCATTTGGTC
* * * **
86179 ATTCGATCATTCAATAATTCAGTC
1 ATTCGGTCATTCAGTCATTTGGTC
*
86203 ATTAGGTCATT-ACGTCATTTGGTC
1 ATTCGGTCATTCA-GTCATTTGGTC
* * *
86227 ATTCGATCATT-TGTCATTCGGTC
1 ATTCGGTCATTCAGTCATTTGGTC
** * *
86250 ATTTTGTCATTC-GATCATTCGTTC
1 ATTCGGTCATTCAG-TCATTTGGTC
* * **
86274 ATTAGGTCATTC-GATCAGTCAGTC
1 ATTCGGTCATTCAG-TCATTTGGTC
* * *
86298 ATTGGGGCATTCAATCATTTGGTC
1 ATTCGGTCATTCAGTCATTTGGTC
* * ***
86322 ATTTGGTCATTCGGTCATTAACTC
1 ATTCGGTCATTCAGTCATTTGGTC
* * *
86346 ATTCGGTTATT-TGATTATTTGGTC
1 ATTCGGTCATTCAG-TCATTTGGTC
*
86370 ATTAC-GTCATT-AGGTCATTTGGTT
1 ATT-CGGTCATTCA-GTCATTTGGTC
* * * *
86394 ATCCAGTCATT-AGGTTATTTGGGC
1 ATTCGGTCATTCA-GTCATTTGGTC
* *
86418 ATTCGGTCATT-AGGTCGTTTGGCC
1 ATTCGGTCATTCA-GTCATTTGGTC
* **
86442 ATTCGGTCATTGGGTCATCAATCATTTAATC
1 ATTCGGTCA-----T--TCAGTCATTTGGTC
* ** *
86473 ATT-AGTCATT-AAACCTTTAGGTC
1 ATTCGGTCATTCAGTCATTT-GGTC
* * *
86496 ATTGGGTCATTCAGTCATTAGGTT
1 ATTCGGTCATTCAGTCATTTGGTC
* * * ***
86520 ATTTGGTCATCCGGTCATTCAATC
1 ATTCGGTCATTCAGTCATTTGGTC
* * * *
86544 ATTAGGTCATTCGGTCATTAGGCC
1 ATTCGGTCATTCAGTCATTTGGTC
* * ** * *
86568 ATTCAGTCTTTTGGTCATTCGATC
1 ATTCGGTCATTCAGTCATTTGGTC
* * *
86592 ATTTGATCATTCAGTCATTTAGTC
1 ATTCGGTCATTCAGTCATTTGGTC
* ** * * *
86616 AATAAGTCATT-AGGCCATTCGATC
1 ATTCGGTCATTCA-GTCATTTGGTC
* * * *
86640 CTTTGGTCATTCAATCATTAGGTC
1 ATTCGGTCATTCAGTCATTTGGTC
* * *
86664 ATTCGGTCCTTCTA-TCATTAGATC
1 ATTCGGTCATTC-AGTCATTTGGTC
* * *
86688 ATTTGGTCATTCAGTCAATTGATC
1 ATTCGGTCATTCAGTCATTTGGTC
*
86712 ATTCGATCATT
1 ATTCGGTCATT
86723 TCGGTTATTA
Statistics
Matches: 431, Mismatches: 136, Indels: 48
0.70 0.22 0.08
Matches are distributed among these distances:
22 6 0.01
23 50 0.12
24 350 0.81
25 9 0.02
29 1 0.00
30 4 0.01
31 10 0.02
32 1 0.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.40
Consensus pattern (24 bp):
ATTCGGTCATTCAGTCATTTGGTC
Found at i:86188 original size:16 final size:16
Alignment explanation
Indices: 86112--86388 Score: 88
Period size: 16 Copynumber: 17.4 Consensus size: 16
86102 TAGGTTATTC
* * *
86112 GGTCATTCAACCATTG
1 GGTCATTCGATCATTA
*
86128 GGTC-TTCGGTCATTCA
1 GGTCATTCGATCATT-A
* * *
86144 -GTCATTTGGTCATTC
1 GGTCATTCGATCATTA
*
86159 GGTCA-TCCAGTCATTA
1 GGTCATTCGA-TCATTA
*
86175 GGTTATTCGATCATTCA
1 GGTCATTCGATCATT-A
* *
86192 -ATAATTC-AGTCATTA
1 GGTCATTCGA-TCATTA
*
86207 GGTCATTACG-TCATTT
1 GGTCATT-CGATCATTA
86223 GGTCATTCGATCATT-
1 GGTCATTCGATCATTA
* * *
86238 TGTCATTCGGTCATTT
1 GGTCATTCGATCATTA
* *
86254 TGTCATTCGATCATTC
1 GGTCATTCGATCATTA
* * * *
86270 GTTCATTAGGTCATTC
1 GGTCATTCGATCATTA
* * *
86286 GATCAGTC-AGTCATTG
1 GGTCATTCGA-TCATTA
* * *
86302 GGGCATTCAATCATTT
1 GGTCATTCGATCATTA
* * *
86318 GGTCATTTGGTCATTC
1 GGTCATTCGATCATTA
* *
86334 GGTCATT-AACTCATTC
1 GGTCATTCGA-TCATTA
* * * *
86350 GGTTATTTGATTATTT
1 GGTCATTCGATCATTA
86366 GGTCATTACG-TCATTA
1 GGTCATT-CGATCATTA
86382 GGTCATT
1 GGTCATT
86389 TGGTTATCCA
Statistics
Matches: 195, Mismatches: 49, Indels: 34
0.70 0.18 0.12
Matches are distributed among these distances:
15 28 0.14
16 159 0.82
17 8 0.04
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41
Consensus pattern (16 bp):
GGTCATTCGATCATTA
Found at i:86323 original size:8 final size:8
Alignment explanation
Indices: 86312--86459 Score: 80
Period size: 8 Copynumber: 18.5 Consensus size: 8
86302 GGGCATTCAA
86312 TCATTTGG
1 TCATTTGG
86320 TCATTTGG
1 TCATTTGG
*
86328 TCATTCGG
1 TCATTTGG
***
86336 TCATTAAC
1 TCATTTGG
*
86344 TCATTCGG
1 TCATTTGG
* *
86352 TTATTTGA
1 TCATTTGG
*
86360 TTATTTGG
1 TCATTTGG
**
86368 TCATTACG
1 TCATTTGG
*
86376 TCATTAGG
1 TCATTTGG
86384 TCATTTGG
1 TCATTTGG
* ***
86392 TTATCCAG
1 TCATTTGG
*
86400 TCATTAGG
1 TCATTTGG
*
86408 TTATTTGG
1 TCATTTGG
* *
86416 GCATTCGG
1 TCATTTGG
*
86424 TCATTAGG
1 TCATTTGG
*
86432 TCGTTTGG
1 TCATTTGG
* *
86440 CCATTCGG
1 TCATTTGG
*
86448 TCATTGGG
1 TCATTTGG
86456 TCAT
1 TCAT
86460 CAATCATTTA
Statistics
Matches: 102, Mismatches: 38, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
8 102 1.00
ACGTcount: A:0.18, C:0.16, G:0.23, T:0.43
Consensus pattern (8 bp):
TCATTTGG
Found at i:86505 original size:8 final size:8
Alignment explanation
Indices: 86492--87657 Score: 187
Period size: 8 Copynumber: 146.0 Consensus size: 8
86482 TAAACCTTTA
*
86492 GGTCATTG
1 GGTCATTC
86500 GGTCATTC
1 GGTCATTC
* *
86508 AGTCATTA
1 GGTCATTC
* *
86516 GGTTATTT
1 GGTCATTC
*
86524 GGTCATCC
1 GGTCATTC
86532 GGTCATTC
1 GGTCATTC
** *
86540 AATCATTA
1 GGTCATTC
86548 GGTCATTC
1 GGTCATTC
*
86556 GGTCATTA
1 GGTCATTC
*
86564 GGCCATTC
1 GGTCATTC
* * *
86572 AGTCTTTT
1 GGTCATTC
86580 GGTCATTC
1 GGTCATTC
* *
86588 GATCATTT
1 GGTCATTC
*
86596 GATCATTC
1 GGTCATTC
* *
86604 AGTCATTT
1 GGTCATTC
* * *
86612 AGTCAATA
1 GGTCATTC
* *
86620 AGTCATTA
1 GGTCATTC
*
86628 GGCCATTC
1 GGTCATTC
* * *
86636 GATCCTTT
1 GGTCATTC
86644 GGTCATTC
1 GGTCATTC
** *
86652 AATCATTA
1 GGTCATTC
86660 GGTCATTC
1 GGTCATTC
*
86668 GGTCCTTC
1 GGTCATTC
** *
86676 TATCATTA
1 GGTCATTC
* *
86684 GATCATTT
1 GGTCATTC
86692 GGTCATTC
1 GGTCATTC
*
86700 AGTCAATT-
1 GGTC-ATTC
*
86708 GATCATTC
1 GGTCATTC
*
86716 GATCATTTC
1 GGTCA-TTC
* *
86725 GGTTATTA
1 GGTCATTC
*
86733 GGTCATTG
1 GGTCATTC
** *
86741 GGTTTTTA
1 GGTCATTC
*
86749 GGTCATTT
1 GGTCATTC
*
86757 GTTCATTC
1 GGTCATTC
** **
86765 AATGGTTC
1 GGTCATTC
**
86773 TTTCATTC
1 GGTCATTC
*
86781 GGTCATTT
1 GGTCATTC
* *
86789 GTTCATTA
1 GGTCATTC
*
86797 GATCACTT-
1 GGTCA-TTC
* *
86805 GATCTTTC
1 GGTCATTC
* *
86813 AGTCATTT
1 GGTCATTC
86821 GGTCATTC
1 GGTCATTC
*
86829 GGTCATTAA
1 GGTCATT-C
*
86838 GG-CCTTC
1 GGTCATTC
* *
86845 AGTCATTT
1 GGTCATTC
*
86853 GGCCATTC
1 GGTCATTC
*
86861 GGTTATAT-
1 GGTCAT-TC
*
86869 GATCATTC
1 GGTCATTC
** *
86877 AATCATTT
1 GGTCATTC
* *
86885 GTTCATTT
1 GGTCATTC
*
86893 AGTCATTC
1 GGTCATTC
86901 GGTCATTC
1 GGTCATTC
** * *
86909 AATAATTT
1 GGTCATTC
* *
86917 GGCCATTA
1 GGTCATTC
* *
86925 GGTTATTT
1 GGTCATTC
*
86933 GATCATTC
1 GGTCATTC
* *
86941 AGTCATTT
1 GGTCATTC
* * *
86949 AGTAATTA
1 GGTCATTC
*
86957 GGTCATTT
1 GGTCATTC
86965 GGTCATTC
1 GGTCATTC
* *
86973 AGTCATTA
1 GGTCATTC
86981 GGTCATTC
1 GGTCATTC
86989 GGTCAGTT-
1 GGTCA-TTC
* *
86997 GTTTATTC
1 GGTCATTC
*
87005 AGTCATTC
1 GGTCATTC
* *
87013 TGTCATTA
1 GGTCATTC
*
87021 GGTCA-CC
1 GGTCATTC
* *
87028 AGTTCATTG
1 -GGTCATTC
*
87037 GGTCATTA
1 GGTCATTC
* * *
87045 GGTTAGTA
1 GGTCATTC
87053 GGTCATTC
1 GGTCATTC
* *
87061 GATTATTC
1 GGTCATTC
* *
87069 AGTCATTA
1 GGTCATTC
*
87077 GGTTATTC
1 GGTCATTC
*
87085 GATCATTC
1 GGTCATTC
* *
87093 GATCATTT
1 GGTCATTC
*
87101 GGCCATTC
1 GGTCATTC
**
87109 ATTCATTC
1 GGTCATTC
*
87117 GGTCATCC
1 GGTCATTC
**
87125 GAACATTC
1 GGTCATTC
* *
87133 GATCATTA
1 GGTCATTC
* *
87141 GATCATTA
1 GGTCATTC
* *
87149 GGT-TTTT
1 GGTCATTC
*
87156 AG-CATTC
1 GGTCATTC
87163 GGTCATTC
1 GGTCATTC
*
87171 TGTCATTC
1 GGTCATTC
87179 GGTCATTC
1 GGTCATTC
** *
87187 AATCATTT
1 GGTCATTC
* *
87195 AGTCATTA
1 GGTCATTC
*
87203 GGACATTC
1 GGTCATTC
** *
87211 AATCATTT
1 GGTCATTC
*
87219 GGTCTTTTC
1 GGTC-ATTC
*
87228 -TTCATTC
1 GGTCATTC
* *
87235 GATCATTA
1 GGTCATTC
*
87243 GGTCATTT
1 GGTCATTC
* *
87251 GATCATTT
1 GGTCATTC
*
87259 GATCATTC
1 GGTCATTC
* *
87267 GATCATTA
1 GGTCATTC
87275 GGTCATTC
1 GGTCATTC
* *
87283 AGT-ATTTA
1 GGTCA-TTC
*
87291 GATCATTC
1 GGTCATTC
** *
87299 AATCATTT
1 GGTCATTC
*
87307 GGTAATTC
1 GGTCATTC
** *
87315 AATCATTA
1 GGTCATTC
*
87323 GGTCATTG
1 GGTCATTC
**
87331 GGTCATGA
1 GGTCATTC
* *
87339 GTTCATTA
1 GGTCATTC
*
87347 GCTCATTC
1 GGTCATTC
* *
87355 GATCATTA
1 GGTCATTC
87363 GGTCA-TC
1 GGTCATTC
** *
87370 ATTCATTA
1 GGTCATTC
*
87378 GCTCATTC
1 GGTCATTC
*
87386 GGTCATTT
1 GGTCATTC
**
87394 AATCATTC
1 GGTCATTC
* *
87402 GATCATTT
1 GGTCATTC
87410 GGTCATTC
1 GGTCATTC
*
87418 GATCATTC
1 GGTCATTC
**
87426 GACCATTC
1 GGTCATTC
* *
87434 AGTCATTA
1 GGTCATTC
*
87442 GGTCATTT
1 GGTCATTC
*
87450 AGTCATTC
1 GGTCATTC
*
87458 TGTCATT-
1 GGTCATTC
*
87465 GGACCATTC
1 GG-TCATTC
*
87474 GATCATTC
1 GGTCATTC
* * *
87482 GATTATTA
1 GGTCATTC
87490 GGTCATTC
1 GGTCATTC
*** *
87498 TAACATTT
1 GGTCATTC
* *
87506 GGTCGTTA
1 GGTCATTC
* *
87514 GGTTATTA
1 GGTCATTC
*
87522 GGTCATTA
1 GGTCATTC
* *
87530 AGTCATTA
1 GGTCATTC
* * *
87538 GATTATTA
1 GGTCATTC
*
87546 GATCATTC
1 GGTCATTC
* *
87554 AGTCATTA
1 GGTCATTC
* * *
87562 GATTATTA
1 GGTCATTC
*
87570 GATCATTC
1 GGTCATTC
* *
87578 AGTCATTA
1 GGTCATTC
* *
87586 TGTCAATC
1 GGTCATTC
** *
87594 AATTATTC
1 GGTCATTC
*
87602 GATCATTC
1 GGTCATTC
*
87610 GATCATTC
1 GGTCATTC
87618 GGTCATTC
1 GGTCATTC
*
87626 GGTCATTG
1 GGTCATTC
87634 GGTCATTC
1 GGTCATTC
* *
87642 AGTTATTC
1 GGTCATTC
*
87650 GATCATTC
1 GGTCATTC
87658 AGCCATTCCA
Statistics
Matches: 799, Mismatches: 337, Indels: 44
0.68 0.29 0.04
Matches are distributed among these distances:
7 24 0.03
8 755 0.94
9 20 0.03
ACGTcount: A:0.23, C:0.18, G:0.17, T:0.42
Consensus pattern (8 bp):
GGTCATTC
Found at i:86512 original size:16 final size:16
Alignment explanation
Indices: 86493--87011 Score: 252
Period size: 16 Copynumber: 32.4 Consensus size: 16
86483 AAACCTTTAG
*
86493 GTCATTGGGTCATTCA
1 GTCATTTGGTCATTCA
* * **
86509 GTCATTAGGTTATTTG
1 GTCATTTGGTCATTCA
**
86525 GTCATCCGGTCATTCA
1 GTCATTTGGTCATTCA
* * *
86541 ATCATTAGGTCATTCG
1 GTCATTTGGTCATTCA
* *
86557 GTCATTAGGCCATTCA
1 GTCATTTGGTCATTCA
*
86573 GTCTTTTGGTCATTC-
1 GTCATTTGGTCATTCA
*
86588 GATCATTTGATCATTCA
1 G-TCATTTGGTCATTCA
* * *
86605 GTCATTTAGTCAATAA
1 GTCATTTGGTCATTCA
* *
86621 GTCATTAGGCCATTC-
1 GTCATTTGGTCATTCA
*
86636 GATCCTTTGGTCATTCA
1 G-TCATTTGGTCATTCA
* * *
86653 ATCATTAGGTCATTCG
1 GTCATTTGGTCATTCA
* *
86669 GTCCTTCT-ATCATT-A
1 GTCATT-TGGTCATTCA
86684 GATCATTTGGTCATTCA
1 G-TCATTTGGTCATTCA
* *
86701 GTCAATTGATCATTC-
1 GTCATTTGGTCATTCA
*
86716 GATCATTTCGGTTATT-A
1 G-TCATTT-GGTCATTCA
* * *
86733 GGTCATTGGGT-TTTTA
1 -GTCATTTGGTCATTCA
*
86749 GGTCATTTGTTCATTCA
1 -GTCATTTGGTCATTCA
* ** * *
86766 ATGGTTCT-TTCATTCG
1 GTCATT-TGGTCATTCA
*
86782 GTCATTTGTTCATT-A
1 GTCATTTGGTCATTCA
* * *
86797 GATCACTTGATCTTTCA
1 G-TCATTTGGTCATTCA
*
86814 GTCATTTGGTCATTCG
1 GTCATTTGGTCATTCA
* *
86830 GTCATTAAGG-CCTTCA
1 GTCATT-TGGTCATTCA
* *
86846 GTCATTTGGCCATTCG
1 GTCATTTGGTCATTCA
* * *
86862 GTTATATGATCATTCA
1 GTCATTTGGTCATTCA
* * *
86878 ATCATTTGTTCATTTA
1 GTCATTTGGTCATTCA
*
86894 GTCATTCGGTCATTCA
1 GTCATTTGGTCATTCA
* * *
86910 ATAATTTGGCCATT-A
1 GTCATTTGGTCATTCA
* *
86925 GGTTATTTGATCATTCA
1 -GTCATTTGGTCATTCA
* *
86942 GTCATTTAGTAATT-A
1 GTCATTTGGTCATTCA
86957 GGTCATTTGGTCATTCA
1 -GTCATTTGGTCATTCA
* *
86974 GTCATTAGGTCATTCG
1 GTCATTTGGTCATTCA
* * *
86990 GTCAGTTGTTTATTCA
1 GTCATTTGGTCATTCA
87006 GTCATT
1 GTCATT
87012 CTGTCATTAG
Statistics
Matches: 367, Mismatches: 112, Indels: 48
0.70 0.21 0.09
Matches are distributed among these distances:
15 13 0.04
16 330 0.90
17 23 0.06
18 1 0.00
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.43
Consensus pattern (16 bp):
GTCATTTGGTCATTCA
Found at i:86528 original size:32 final size:32
Alignment explanation
Indices: 86136--87664 Score: 291
Period size: 32 Copynumber: 48.2 Consensus size: 32
86126 TGGGTCTTCG
* * *
86136 GTCATTCA-GTCATTTGGTCATTCGGTCATCCA
1 GTCATT-AGGTCATTCGGTCATTAGGTCATTCA
* * * *
86168 GTCATTAGGTTATTCGATCATTCA-ATAATTCA
1 GTCATTAGGTCATTCGGTCATT-AGGTCATTCA
*
86200 GTCATTAGGTCATTAC-GTCATTTGGTCATTC-
1 GTCATTAGGTCATT-CGGTCATTAGGTCATTCA
* **
86231 GATCATT-TGTCATTCGGTCATTTTGTCATTC-
1 G-TCATTAGGTCATTCGGTCATTAGGTCATTCA
* * * * * *
86262 GATCATTCGTTCATTAGGTCATTCGATCAGTCA
1 G-TCATTAGGTCATTCGGTCATTAGGTCATTCA
* * * *
86295 GTCATTGGGGCATTCAATCATTTGGTCATTTGGTCATTCG
1 GTCATT-AGG-------TCATTCGGTCATTAGGTCATTCA
** * * * * **
86335 GTCATTAACTCATTCGGTTATTTGATTATTTG
1 GTCATTAGGTCATTCGGTCATTAGGTCATTCA
* * * * *
86367 GTCATTACGTCATTAGGTCATTTGGTTATCCA
1 GTCATTAGGTCATTCGGTCATTAGGTCATTCA
* * * *
86399 GTCATTAGGTTATTTGGGCATTCGGTCATT-A
1 GTCATTAGGTCATTCGGTCATTAGGTCATTCA
* * * *
86430 GGTCGTTTGGCCATTCGGTCATTGGGTCA-TCA
1 -GTCATTAGGTCATTCGGTCATTAGGTCATTCA
* * * ** * *
86462 ATCATTTA-ATCATT-AGTCATTA-AACCTTTA
1 GTCA-TTAGGTCATTCGGTCATTAGGTCATTCA
* * * **
86492 GGTCATTGGGTCATTCAGTCATTAGGTTATTTG
1 -GTCATTAGGTCATTCGGTCATTAGGTCATTCA
** ** *
86525 GTCATCCGGTCATTCAATCATTAGGTCATTCG
1 GTCATTAGGTCATTCGGTCATTAGGTCATTCA
* * * *
86557 GTCATTAGGCCATTCAGTCTTTTGGTCATTC-
1 GTCATTAGGTCATTCGGTCATTAGGTCATTCA
* * * * *
86588 GATCATTTGATCATTCAGTCATTTA-GTCAATAA
1 G-TCATTAGGTCATTCGGTCA-TTAGGTCATTCA
* * * *
86621 GTCATTAGGCCATTCGATCCTTTGGTCATTCA
1 GTCATTAGGTCATTCGGTCATTAGGTCATTCA
* * ***
86653 ATCATTAGGTCATTCGGTCCTTCTATCATT-A
1 GTCATTAGGTCATTCGGTCATTAGGTCATTCA
* * *
86684 GATCATTTGGTCATTCAGTCAATT-GATCATTC-
1 G-TCATTAGGTCATTCGGTC-ATTAGGTCATTCA
* * * * * *
86716 GATCATTTCGGTTATTAGGTCATTGGGT-TTTTA
1 G-TCA-TTAGGTCATTCGGTCATTAGGTCATTCA
* * ** ** *** *
86749 GGTCATTTGTTCATTCAATGGTTCTTTCATTCG
1 -GTCATTAGGTCATTCGGTCATTAGGTCATTCA
* * * * * *
86782 GTCATTTGTTCATTAGATCACTT-GATCTTTCA
1 GTCATTAGGTCATTCGGTCA-TTAGGTCATTCA
* *
86814 GTCATTTGGTCATTCGGTCATTAAGG-CCTTCA
1 GTCATTAGGTCATTCGGTCATT-AGGTCATTCA
* * * *
86846 GTCATTTGGCCATTCGGTTA-TATGATCATTCA
1 GTCATTAGGTCATTCGGTCATTA-GGTCATTCA
* * * ** *
86878 ATCATTTGTTCATTTAGTCATTCGGTCATTCA
1 GTCATTAGGTCATTCGGTCATTAGGTCATTCA
* * * * * * * *
86910 ATAATTTGGCCATTAGGTTATTTGATCATTCA
1 GTCATTAGGTCATTCGGTCATTAGGTCATTCA
* * *
86942 GTCATTTA-GTAATTAGGTCATTTGGTCATTCA
1 GTCA-TTAGGTCATTCGGTCATTAGGTCATTCA
* *
86974 GTCATTAGGTCATTCGGTCAGTT-GTTTATTCA
1 GTCATTAGGTCATTCGGTCA-TTAGGTCATTCA
** * ** * **
87006 GTCATTCTGTCATTAGGTCACCAGTTCATTGG
1 GTCATTAGGTCATTCGGTCATTAGGTCATTCA
* * * * * *
87038 GTCATTAGGTTAGTAGGTCATTCGATTATTCA
1 GTCATTAGGTCATTCGGTCATTAGGTCATTCA
* * * * **
87070 GTCATTAGGTTATTCGATCATTCGATCATTTG
1 GTCATTAGGTCATTCGGTCATTAGGTCATTCA
* * ** **
87102 GCCATTCA-TTCATTCGGTCATCCGAACATTC-
1 GTCATT-AGGTCATTCGGTCATTAGGTCATTCA
* * ** *
87133 GATCATTAGATCATTAGGTTTTTA-G-CATTCG
1 G-TCATTAGGTCATTCGGTCATTAGGTCATTCA
** * *
87164 GTCATTCTGTCATTCGGTCATTCA-ATCATTTA
1 GTCATTAGGTCATTCGGTCATT-AGGTCATTCA
* ** *
87196 GTCATTAGGACATTCAATCATTTGGTC-TT--
1 GTCATTAGGTCATTCGGTCATTAGGTCATTCA
* * *
87225 TTC--T---TCATTCGATCATTAGGTCATT-T
1 GTCATTAGGTCATTCGGTCATTAGGTCATTCA
* * *
87251 GATCATTTGATCATTCGATCATTAGGTCATTCA
1 G-TCATTAGGTCATTCGGTCATTAGGTCATTCA
* ** * *
87284 GT-ATTTAGATCATTCAATCATTTGGTAATTCA
1 GTCA-TTAGGTCATTCGGTCATTAGGTCATTCA
* * *
87316 ATCATTAGGTCATTGGGTCA-T--G--AGT--
1 GTCATTAGGTCATTCGGTCATTAGGTCATTCA
* *
87341 -TCATTAGCTCATTCGATCATTAGGTCA-TCA
1 GTCATTAGGTCATTCGGTCATTAGGTCATTCA
* * *
87371 TTCATTAGCTCATTCGGTCATTTA-ATCATTC-
1 GTCATTAGGTCATTCGGTCA-TTAGGTCATTCA
* * * **
87402 GATCATTTGGTCATTCGATCATTCGACCATTCA
1 G-TCATTAGGTCATTCGGTCATTAGGTCATTCA
** ** *
87435 GTCATTAGGTCATTTAGTCATTCTGTCATT-G
1 GTCATTAGGTCATTCGGTCATTAGGTCATTCA
* * * * *
87466 GACCATTCGATCATTCGATTATTAGGTCATTCTA
1 G-TCATTAGGTCATTCGGTCATTAGGTCATTC-A
* * * * * *
87500 -ACATTTGGTCGTTAGGTTATTAGGTCATTAA
1 GTCATTAGGTCATTCGGTCATTAGGTCATTCA
* * * *
87531 GTCATTAGATTATTAGATCATTCA-GTCATT-A
1 GTCATTAGGTCATTCGGTCATT-AGGTCATTCA
* * * * *
87562 GATTATTAGATCATTCAGTCATTATGTCAATCA
1 G-TCATTAGGTCATTCGGTCATTAGGTCATTCA
* * * * * * *
87595 ATTATTCGATCATTCGATCATTCGGTCATTCG
1 GTCATTAGGTCATTCGGTCATTAGGTCATTCA
* * * * *
87627 GTCATTGGGTCATTCAGTTATTCGATCATTCA
1 GTCATTAGGTCATTCGGTCATTAGGTCATTCA
*
87659 GCCATT
1 GTCATT
87665 CCATAGTTAG
Statistics
Matches: 1093, Mismatches: 319, Indels: 170
0.69 0.20 0.11
Matches are distributed among these distances:
24 31 0.03
25 3 0.00
27 6 0.01
28 1 0.00
29 6 0.01
30 32 0.03
31 92 0.08
32 854 0.78
33 43 0.04
34 1 0.00
40 24 0.02
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (32 bp):
GTCATTAGGTCATTCGGTCATTAGGTCATTCA
Found at i:87078 original size:24 final size:24
Alignment explanation
Indices: 87051--87641 Score: 215
Period size: 24 Copynumber: 24.4 Consensus size: 24
87041 ATTAGGTTAG
*
87051 TAGGTCATTCGATTATTCAGTCAT
1 TAGGTCATTCGATCATTCAGTCAT
*
87075 TAGGTTATTCGATCATTC-GATCAT
1 TAGGTCATTCGATCATTCAG-TCAT
* * *
87099 TTGGCCATTC-ATTCATTCGGTCAT
1 TAGGTCATTCGA-TCATTCAGTCAT
** **
87123 CCGAACATTCGATCATT-AGATCAT
1 TAGGTCATTCGATCATTCAG-TCAT
* *
87147 TAGGTTTTTAGCATTCGGTCATTCTGTCAT
1 TAGG----T--CATTCGATCATTCAGTCAT
* * *
87177 TCGGTCATTCAATCATTTAGTCAT
1 TAGGTCATTCGATCATTCAGTCAT
* * ** *
87201 TAGGACATTCAATCATTTGGTCTT
1 TAGGTCATTCGATCATTCAGTCAT
***
87225 TTCTTCATTCGATCATT-AGGTCAT
1 TAGGTCATTCGATCATTCA-GTCAT
* * *
87249 TTGATCATTTGATCATTC-GATCAT
1 TAGGTCATTCGATCATTCAG-TCAT
*
87273 TAGGTCATTC-AGT-ATTTAGATCAT
1 TAGGTCATTCGA-TCATTCAG-TCAT
* * * * *
87297 TCA-ATCATTTGGTAATTCAATCAT
1 T-AGGTCATTCGATCATTCAGTCAT
* * *
87321 TAGGTCATTGGGTCA-TGAGTTCAT
1 TAGGTCATTCGATCATTCAG-TCAT
*
87345 TAGCTCATTCGATCATT-AGGTCAT
1 TAGGTCATTCGATCATTCA-GTCAT
* * * * *
87369 CA-TTCATTAGCTCATTCGGTCATT
1 TAGGTCATTCGATCATTCAGTCA-T
* **
87393 TA-ATCATTCGATCATTTGGTCAT
1 TAGGTCATTCGATCATTCAGTCAT
* * *
87416 TCGATCATTCGACCATTCAGTCAT
1 TAGGTCATTCGATCATTCAGTCAT
* *
87440 TAGGTCATT-TAGTCATTCTGTCAT
1 TAGGTCATTCGA-TCATTCAGTCAT
* *
87464 T-GGACCATTCGATCATTC-GATTAT
1 TAGG-TCATTCGATCATTCAG-TCAT
* * ** *
87488 TAGGTCATTCTAACATTTGGTCGT
1 TAGGTCATTCGATCATTCAGTCAT
* * * *
87512 TAGGTTATTAGGTCATTAAGTCAT
1 TAGGTCATTCGATCATTCAGTCAT
* * *
87536 TAGATTATTAGATCATTCAGTCAT
1 TAGGTCATTCGATCATTCAGTCAT
* * *
87560 TAGATTATTAGATCATTCAGTCAT
1 TAGGTCATTCGATCATTCAGTCAT
* * * *
87584 TATGTCAATCAATTATTC-GATCAT
1 TAGGTCATTCGATCATTCAG-TCAT
* * * *
87608 TCGATCATTCGGTCATTCGGTCAT
1 TAGGTCATTCGATCATTCAGTCAT
*
87632 TGGGTCATTC
1 TAGGTCATTC
87642 AGTTATTCGA
Statistics
Matches: 425, Mismatches: 107, Indels: 70
0.71 0.18 0.12
Matches are distributed among these distances:
23 33 0.08
24 358 0.84
25 14 0.03
26 1 0.00
30 18 0.04
31 1 0.00
ACGTcount: A:0.25, C:0.18, G:0.16, T:0.41
Consensus pattern (24 bp):
TAGGTCATTCGATCATTCAGTCAT
Found at i:87375 original size:31 final size:32
Alignment explanation
Indices: 87325--87392 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 32
87315 AATCATTAGG
* *
87325 TCATTGGGTCATGAGTTCATTAGCTCATTCGA
1 TCATTAGGTCATCAGTTCATTAGCTCATTCGA
*
87357 TCATTAGGTCATCA-TTCATTAGCTCATTCGG
1 TCATTAGGTCATCAGTTCATTAGCTCATTCGA
87388 TCATT
1 TCATT
87393 TAATCATTCG
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
31 21 0.64
32 12 0.36
ACGTcount: A:0.22, C:0.21, G:0.18, T:0.40
Consensus pattern (32 bp):
TCATTAGGTCATCAGTTCATTAGCTCATTCGA
Found at i:87655 original size:16 final size:16
Alignment explanation
Indices: 87570--87704 Score: 71
Period size: 16 Copynumber: 8.4 Consensus size: 16
87560 TAGATTATTA
*
87570 GATCATTCAGTCATTAT
1 GATCATTCAGTCATT-C
* * *
87587 G-TCAATCAATTATTC
1 GATCATTCAGTCATTC
87602 GATCATTC-GATCATTC
1 GATCATTCAG-TCATTC
* * *
87618 GGTCATTCGGTCATTG
1 GATCATTCAGTCATTC
* *
87634 GGTCATTCAGTTATTC
1 GATCATTCAGTCATTC
*
87650 GATCATTCAGCCATTC
1 GATCATTCAGTCATTC
*
87666 CAT-AGTT-AGGTCATTC
1 GATCA-TTCA-GTCATTC
* ** *
87682 AATCATTTGGTCAATC
1 GATCATTCAGTCATTC
87698 GATCATT
1 GATCATT
87705 TGATCATTCG
Statistics
Matches: 90, Mismatches: 21, Indels: 15
0.71 0.17 0.12
Matches are distributed among these distances:
15 3 0.03
16 84 0.93
17 3 0.03
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.39
Consensus pattern (16 bp):
GATCATTCAGTCATTC
Found at i:87705 original size:16 final size:16
Alignment explanation
Indices: 87683--87716 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
87673 AGGTCATTCA
*
87683 ATCATTTGGTCAATCG
1 ATCATTTGATCAATCG
*
87699 ATCATTTGATCATTCG
1 ATCATTTGATCAATCG
87715 AT
1 AT
87717 TTTTCGATCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.41
Consensus pattern (16 bp):
ATCATTTGATCAATCG
Found at i:87751 original size:24 final size:24
Alignment explanation
Indices: 87696--87760 Score: 78
Period size: 24 Copynumber: 2.7 Consensus size: 24
87686 ATTTGGTCAA
* *
87696 TCGATCATTTGATCATTCGATTTT
1 TCGATCATTTGGTCATTCGATTAT
*
87720 TCGATCATTTGGTCATTCTATTAT
1 TCGATCATTTGGTCATTCGATTAT
*
87744 TC-AGTCATTAGGTCATT
1 TCGA-TCATTTGGTCATT
87761 ATGTCATTGG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
23 1 0.03
24 35 0.97
ACGTcount: A:0.22, C:0.17, G:0.14, T:0.48
Consensus pattern (24 bp):
TCGATCATTTGGTCATTCGATTAT
Found at i:87758 original size:8 final size:8
Alignment explanation
Indices: 87747--87826 Score: 54
Period size: 8 Copynumber: 10.0 Consensus size: 8
87737 CTATTATTCA
87747 GTCATTAG
1 GTCATTAG
*
87755 GTCATTAT
1 GTCATTAG
*
87763 GTCATTGG
1 GTCATTAG
87771 GTCATTAG
1 GTCATTAG
* * *
87779 ATTATTAA
1 GTCATTAG
* *
87787 ATCATTTG
1 GTCATTAG
* *
87795 ATAATTAG
1 GTCATTAG
87803 GTCATTAG
1 GTCATTAG
*
87811 GTTATTCA-
1 GTCATT-AG
87819 GTCATTAG
1 GTCATTAG
87827 TTGATTTGGT
Statistics
Matches: 54, Mismatches: 16, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
7 1 0.02
8 52 0.96
9 1 0.02
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.42
Consensus pattern (8 bp):
GTCATTAG
Found at i:87792 original size:32 final size:33
Alignment explanation
Indices: 87756--87825 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 33
87746 AGTCATTAGG
* *
87756 TCATTATG-TCATTGGGTCATTAGATTATTAAA
1 TCATTATGATAATTAGGTCATTAGATTATTAAA
* * *
87788 TCATT-TGATAATTAGGTCATTAGGTTATTCAG
1 TCATTATGATAATTAGGTCATTAGATTATTAAA
87820 TCATTA
1 TCATTA
87826 GTTGATTTGG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
31 2 0.06
32 29 0.94
ACGTcount: A:0.30, C:0.10, G:0.16, T:0.44
Consensus pattern (33 bp):
TCATTATGATAATTAGGTCATTAGATTATTAAA
Found at i:87825 original size:24 final size:24
Alignment explanation
Indices: 87742--87826 Score: 64
Period size: 24 Copynumber: 3.5 Consensus size: 24
87732 TCATTCTATT
*
87742 ATTCAGTCATTAGGTCATTATGTC
1 ATTCAGTCATTAGGTCATTAAGTC
** * * *
87766 ATTGGGTCATTAGATTATTAAATC
1 ATTCAGTCATTAGGTCATTAAGTC
* * * *
87790 ATT-TGATAATTAGGTCATTAGGTT
1 ATTCAG-TCATTAGGTCATTAAGTC
87814 ATTCAGTCATTAG
1 ATTCAGTCATTAG
87827 TTGATTTGGT
Statistics
Matches: 44, Mismatches: 15, Indels: 4
0.70 0.24 0.06
Matches are distributed among these distances:
23 1 0.02
24 42 0.95
25 1 0.02
ACGTcount: A:0.29, C:0.11, G:0.18, T:0.42
Consensus pattern (24 bp):
ATTCAGTCATTAGGTCATTAAGTC
Found at i:88364 original size:14 final size:15
Alignment explanation
Indices: 88340--88368 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
88330 CTCTAAAAAA
88340 ATTTAATTTTTATTT
1 ATTTAATTTTTATTT
88355 ATTT-ATTTTTATTT
1 ATTTAATTTTTATTT
88369 TTAAACTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
ATTTAATTTTTATTT
Found at i:99240 original size:3 final size:3
Alignment explanation
Indices: 99234--99289 Score: 78
Period size: 3 Copynumber: 18.3 Consensus size: 3
99224 TTTTTATTTG
*
99234 ATT ATT ATT -TAT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATG ATAT
1 ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T
99280 ATT ATT ATT A
1 ATT ATT ATT A
99290 AATAATAAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
2 1 0.02
3 44 0.92
4 3 0.06
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:101540 original size:18 final size:16
Alignment explanation
Indices: 101517--101573 Score: 53
Period size: 18 Copynumber: 3.3 Consensus size: 16
101507 TTTCTTTCAA
101517 ATTTTTTTATTACTTATT
1 ATTTTTTTATTA-TT-TT
*
101535 ATTTTTATATTATTTT
1 ATTTTTTTATTATTTT
101551 ATATTATTTTATT-TATTT
1 AT-TT-TTTTATTAT-TTT
101569 ATTTT
1 ATTTT
101574 ATTCATGTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
16 5 0.15
17 7 0.21
18 22 0.65
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.74
Consensus pattern (16 bp):
ATTTTTTTATTATTTT
Found at i:101550 original size:10 final size:10
Alignment explanation
Indices: 101531--101568 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
101521 TTTTATTACT
101531 TATTATTTTTA
1 TATTA-TTTTA
101542 TATTATTTTA
1 TATTATTTTA
101552 TATTATTTTA
1 TATTATTTTA
101562 T-TTATTT
1 TATTATTT
101569 ATTTTATTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 6 0.22
10 16 0.59
11 5 0.19
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (10 bp):
TATTATTTTA
Found at i:101576 original size:18 final size:20
Alignment explanation
Indices: 101531--101568 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
101521 TTTTATTACT
101531 TATTATTTTTATATTATTTTA
1 TATTA-TTTTATATTATTTTA
101552 TATTATTTTAT-TTATTT
1 TATTATTTTATATTATTT
101569 ATTTTATTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 6 0.35
21 5 0.29
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (20 bp):
TATTATTTTATATTATTTTA
Found at i:111009 original size:97 final size:96
Alignment explanation
Indices: 110815--111013 Score: 371
Period size: 97 Copynumber: 2.1 Consensus size: 96
110805 GTCGGTGATA
*
110815 ATTGAAAATATTTCTTTGAGATTTCTGTCAGTTAGTTTCAACCATACTATGAGGTTACAAAGTTG
1 ATTGAAAATATTTCTTTGAGATTTCTGTCAGTTAGTTTCAACCATACTATGAGGTAACAAAGTTG
110880 TTTTTCACATCAGTTTTGTTTACTTGATGAC
66 TTTTTCACATCAGTTTTGTTTACTTGATGAC
*
110911 ATTGAAAATATTTCTTTGAGATTTCTGTCAGTTAGTTTCAACCATACTGTTGAGGTAACAAAGTT
1 ATTGAAAATATTTCTTTGAGATTTCTGTCAGTTAGTTTCAACCATACT-ATGAGGTAACAAAGTT
110976 GTTTTTCACATCAGTTTTGTTTACTTGATGAC
65 GTTTTTCACATCAGTTTTGTTTACTTGATGAC
111008 ATTGAA
1 ATTGAA
111014 GAAAGAAGCT
Statistics
Matches: 100, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
96 48 0.48
97 52 0.52
ACGTcount: A:0.28, C:0.13, G:0.16, T:0.43
Consensus pattern (96 bp):
ATTGAAAATATTTCTTTGAGATTTCTGTCAGTTAGTTTCAACCATACTATGAGGTAACAAAGTTG
TTTTTCACATCAGTTTTGTTTACTTGATGAC
Found at i:111577 original size:50 final size:54
Alignment explanation
Indices: 111421--111582 Score: 181
Period size: 54 Copynumber: 3.1 Consensus size: 54
111411 CAATGATTGA
* * *
111421 GAACATCTAAGCAGAAATCACAGGAAAGGATGAATGTGTTGTCAAATGCTTTAC
1 GAACATCTAAGCAGAAACCACAGGAAAAGATGAATGTGTTGTCAAATGTTTTAC
* * *
111475 GAACATCTAAGCAGAAGCCACA-GAAAAGGATGAAGGTGTTGTCAAGTGTTTTAC
1 GAACATCTAAGCAGAAACCACAGGAAAA-GATGAATGTGTTGTCAAATGTTTTAC
* * * **
111529 -ATC-TC-GA-CAGAAACCACAGGAAAAGATGAATGTATTGTCAAAAATTTTAC
1 GAACATCTAAGCAGAAACCACAGGAAAAGATGAATGTGTTGTCAAATGTTTTAC
111579 GAAC
1 GAAC
111583 CAGTGATTAT
Statistics
Matches: 90, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
50 31 0.34
51 8 0.09
52 2 0.02
53 6 0.07
54 43 0.48
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.23
Consensus pattern (54 bp):
GAACATCTAAGCAGAAACCACAGGAAAAGATGAATGTGTTGTCAAATGTTTTAC
Found at i:111932 original size:22 final size:22
Alignment explanation
Indices: 111903--111957 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
111893 ATCTGCACTC
111903 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
* *
111925 TTTAAAGATGATATATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
111947 TTCAAAGATGA
1 TTCAAAGATGA
111958 AAGCTTTATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.42
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:112601 original size:113 final size:113
Alignment explanation
Indices: 112364--112657 Score: 439
Period size: 113 Copynumber: 2.6 Consensus size: 113
112354 AGTTCAAATC
* * * *
112364 CATCATTCAATGGATCAACATTTCTAG-AAGAGCTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTCGATGGATCAACATTGCCAGAAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
112428 AGAATAAGTTCATAATGAGAAGAACTTGTTTAACTTTTCGCTTGAATT
66 AGAATAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATT
** * *** *
112476 TTTCATTCGATGGATCAGCATTGCCAGGTCGAGTTCATAAAGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTCGATGGATCAACATTGCCAGAAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
112541 AGAATAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATT
66 AGAATAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATT
* *
112589 CATCACTT-GATGGATCAATATTTCCAGAAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
1 CATCA-TTCGATGGATCAACATTGCCAGAAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
112653 AAGAA
65 AAGAA
112658 CTCATCTGAA
Statistics
Matches: 160, Mismatches: 20, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
112 21 0.13
113 137 0.86
114 2 0.01
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.28
Consensus pattern (113 bp):
CATCATTCGATGGATCAACATTGCCAGAAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
AGAATAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATT
Found at i:112655 original size:20 final size:20
Alignment explanation
Indices: 112632--112677 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
112622 TTCATAATGA
112632 GAAGAACTCATCTGAAGAAG
1 GAAGAACTCATCTGAAGAAG
*
112652 GAAGAACTCATCTGAAGAAT
1 GAAGAACTCATCTGAAGAAG
112672 GAAGAA
1 GAAGAA
112678 GAAGTTCATA
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:0.48, C:0.13, G:0.24, T:0.15
Consensus pattern (20 bp):
GAAGAACTCATCTGAAGAAG
Found at i:112657 original size:133 final size:133
Alignment explanation
Indices: 112519--112790 Score: 447
Period size: 133 Copynumber: 2.0 Consensus size: 133
112509 TTCATAAAGA
*
112519 GAAGAACTCATCTGAAGAAGGAAGAATAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTT
1 GAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTT
* * *
112584 GAATTCATCACTT-GATGGATCAATATTTCCAGAAAGAGTTCATAATGAGAAGAACTCATCTGAA
66 GAATTCATCA-TTCGATGGATCAACATTGCCAGAAAGAGTTCATAATAAGAAGAACTCATCTGAA
112648 GAAG
130 GAAG
*
112652 GAAGAACTCATCTGAAGAATGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTT
1 GAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTT
* ***
112717 GAATTCATCATTCGATGGATCAGCATTGCCAGGGCGAGTTCATAATAAGAAGAACTCATCTGAAG
66 GAATTCATCATTCGATGGATCAACATTGCCAGAAAGAGTTCATAATAAGAAGAACTCATCTGAAG
112782 AAG
131 AAG
112785 GAAGAA
1 GAAGAA
112791 GAAGTTCATA
Statistics
Matches: 129, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
132 2 0.02
133 127 0.98
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.26
Consensus pattern (133 bp):
GAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTT
GAATTCATCATTCGATGGATCAACATTGCCAGAAAGAGTTCATAATAAGAAGAACTCATCTGAAG
AAG
Found at i:112769 original size:113 final size:112
Alignment explanation
Indices: 112652--113710 Score: 1277
Period size: 113 Copynumber: 9.4 Consensus size: 112
112642 TCTGAAGAAG
* *
112652 GAAGAACTCATCTGAAGAATGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTT
1 GAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTT-GCTC
* * * **** *
112717 GAATTCATCAT-TCGATGGATCAGCATTGCCAGGGCGAGTTCATAATAA
65 AAATCCATCATCT-GATGGATCAGCATTTCCAGAAAAAGTTCATAATGA
*
112765 GAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACTTTTTGCTC
1 GAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC-TTTTGCTC
* * *
112830 AAATCCATCATCTAATGGATCAGCTTTTCCAGAAAAAGTTTATAATGA
65 AAATCCATCATCTGATGGATCAGCATTTCCAGAAAAAGTTCATAATGA
* *
112878 GAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
1 GAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTTGCTC
*
112943 AAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGA
65 AAATCCATCATCTGATGGATCAGCATTTCCAGAAAAAGTTCATAATGA
* *
112991 GAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
1 GAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTTGCTC
113056 AAATCCATCATCTGATGGATCAGCATTTCCAGAAAAAGTTCATAATGA
65 AAATCCATCATCTGATGGATCAGCATTTCCAGAAAAAGTTCATAATGA
* *
113104 GAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
1 GAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTTGCTC
*
113169 AAATCCATCATCTGATGGATCAGCATTTCCAGAAATAGTTCATAATGA
65 AAATCCATCATCTGATGGATCAGCATTTCCAGAAAAAGTTCATAATGA
*
113217 GAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTT
1 GAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTT-GCTC
* * * **** *
113282 GAATTCATCAT-TCGATGGATCAGCATTGCCAGGGCGAGTTCATAATAA
65 AAATCCATCATCT-GATGGATCAGCATTTCCAGAAAAAGTTCATAATGA
* * * *
113330 GAAGAACTCATCTGAATAATGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACTTTTTGCTT
1 GAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC-TTTTGCTC
* * * *
113395 GAATTCATCA-CTTGATGGATCAACATTTCCAGAGAAAGTTCATAATGA
65 AAATCCATCATC-TGATGGATCAGCATTTCCAGAAAAAGTTCATAATGA
* * * *
113443 GAAGAACTCATCTGAAAAAGGAAGAAGAAGTTCATAATGAAAAGAACTTGTTCGACTTTAG-T--
1 GAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTGCTCA
* * *
113505 --T---TGATC-GACGGATCAACATTTCCAG--AAAGTTCATAATGA
66 AATCCATCATCTGATGGATCAGCATTTCCAGAAAAAGTTCATAATGA
* * *
113544 GAAGAACTTATCTAAAG-AGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCAT
1 GAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTTGC-T
** ** *** * *
113608 GACTCTATCACAGAAGGAGATAGATCAGCATCAACTTTTCCAGAGAAAGTTCATAATGA
64 --C-AAATC-CATCATCTGATGGATCAG---C-A--TTTCCAGAAAAAGTTCATAATGA
*
113667 GAAGAACTTATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGA
1 GAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
113711 GCTTATTTAA
Statistics
Matches: 850, Mismatches: 64, Indels: 54
0.88 0.07 0.06
Matches are distributed among these distances:
100 34 0.04
101 33 0.04
103 19 0.02
104 2 0.00
105 1 0.00
107 1 0.00
110 1 0.00
111 1 0.00
112 10 0.01
113 663 0.78
114 12 0.01
115 7 0.01
118 1 0.00
119 1 0.00
121 7 0.01
123 57 0.07
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.27
Consensus pattern (112 bp):
GAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTGCTCA
AATCCATCATCTGATGGATCAGCATTTCCAGAAAAAGTTCATAATGA
Found at i:113593 original size:100 final size:102
Alignment explanation
Indices: 113411--113595 Score: 311
Period size: 100 Copynumber: 1.8 Consensus size: 102
113401 ATCACTTGAT
113411 GGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAAAAGGAAGAAGAAGTTC
1 GGATCAACATTTCCA-AGAAAGTTCATAATGAGAAGAACTCATCTGAAAAAGGAAGAAGAAGTTC
113476 ATAATGAAAAGAACTTGTTCGACTTTAGTTTGATCGAC
65 ATAATGAAAAGAACTTGTTCGACTTTAGTTTGATCGAC
* *
113514 GGATCAACATTTCC-AGAAAGTTCATAATGAGAAGAACTTATCT-AAAGAGGAAGAAGAAGTTCA
1 GGATCAACATTTCCAAGAAAGTTCATAATGAGAAGAACTCATCTGAAAAAGGAAGAAGAAGTTCA
* *
113577 TAATGAGAAGAGCTTGTTC
66 TAATGAAAAGAACTTGTTC
113596 AACCTTTTGC
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
100 36 0.46
101 28 0.36
103 14 0.18
ACGTcount: A:0.41, C:0.13, G:0.21, T:0.25
Consensus pattern (102 bp):
GGATCAACATTTCCAAGAAAGTTCATAATGAGAAGAACTCATCTGAAAAAGGAAGAAGAAGTTCA
TAATGAAAAGAACTTGTTCGACTTTAGTTTGATCGAC
Found at i:113659 original size:123 final size:123
Alignment explanation
Indices: 113516--113847 Score: 469
Period size: 123 Copynumber: 2.7 Consensus size: 123
113506 TGATCGACGG
*
113516 ATCAACATTTCC--AGAAAGTTCATAATGAGAAGAACTTATCTAAAGAGGAAGAAGAAGTTCATA
1 ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATA
* * * *
113579 ATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAGC
66 ATGAGAAGAGCTTATTCAACCTTTTGCATAACTCTATCACAGAAGCAGATAGATCAAC
*
113637 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATA
1 ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATA
* **
113702 ATGAGAAGAGCTTATTTAACCTTTTGTTTAACTCTATCACAGAAGCAGATAGATCAAC
66 ATGAGAAGAGCTTATTCAACCTTTTGCATAACTCTATCACAGAAGCAGATAGATCAAC
** * *
113760 ATCAACATTTCCAGA-ATTGTTCATAATGAGAAGAACTCATCTGAA-A--AAGAATAAGTTCATA
1 ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATA
** * *
113821 ATGAGAAGAATTTCTTCAACTTTTTGC
66 ATGAGAAGAGCTTATTCAACCTTTTGC
113848 TATATTACAT
Statistics
Matches: 189, Mismatches: 20, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
119 35 0.19
121 12 0.06
122 27 0.14
123 115 0.61
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (123 bp):
ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATA
ATGAGAAGAGCTTATTCAACCTTTTGCATAACTCTATCACAGAAGCAGATAGATCAAC
Found at i:114081 original size:14 final size:13
Alignment explanation
Indices: 114052--114087 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 13
114042 TTTTTATTTG
114052 ATTA-TATTATAT
1 ATTATTATTATAT
114064 ATTATTATTATGAT
1 ATTATTATTAT-AT
114078 ATTATTATTA
1 ATTATTATTA
114088 AATAATAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 4 0.18
13 6 0.27
14 12 0.55
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (13 bp):
ATTATTATTATAT
Found at i:114705 original size:11 final size:11
Alignment explanation
Indices: 114691--114715 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
114681 AAGAGCTGCC
114691 GAACCACCGTG
1 GAACCACCGTG
114702 GAACCACCGTG
1 GAACCACCGTG
114713 GAA
1 GAA
114716 TCAAAAGTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.32, G:0.28, T:0.08
Consensus pattern (11 bp):
GAACCACCGTG
Found at i:115556 original size:24 final size:26
Alignment explanation
Indices: 115503--115556 Score: 69
Period size: 23 Copynumber: 2.2 Consensus size: 26
115493 TAATAATTTA
115503 AATATTTTACATAAATTATTTTTATC
1 AATATTTTACATAAATTATTTTTATC
* *
115529 -ATATTTTA-AT-ATTTATTTTTTTC
1 AATATTTTACATAAATTATTTTTATC
115552 AATAT
1 AATAT
115557 CAAAGAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
23 11 0.44
24 6 0.24
25 8 0.32
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (26 bp):
AATATTTTACATAAATTATTTTTATC
Found at i:116267 original size:16 final size:15
Alignment explanation
Indices: 116246--116292 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
116236 TTTCTTTCAA
116246 ATTTTTTATTACTTAT
1 ATTTTTTATTA-TTAT
*
116262 ATTTTTATATTATTTT
1 ATTTTT-TATTATTAT
116278 ATTTATTTATT-TTAT
1 ATTT-TTTATTATTAT
116293 TCATGTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 3 0.11
16 17 0.63
17 7 0.26
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (15 bp):
ATTTTTTATTATTAT
Found at i:116287 original size:13 final size:14
Alignment explanation
Indices: 116265--116293 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
116255 TACTTATATT
116265 TTTATATTATTTTA
1 TTTATATTATTTTA
116279 TTTAT-TTATTTTA
1 TTTATATTATTTTA
116292 TT
1 TT
116294 CATGTATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTATATTATTTTA
Found at i:126141 original size:53 final size:53
Alignment explanation
Indices: 126060--126208 Score: 153
Period size: 53 Copynumber: 2.8 Consensus size: 53
126050 CAATGATTGA
* * *
126060 GAACATCTTAGCAGAAATCACAGGAAAGGTGAATGTGTTGTCAAATGCTTTAC
1 GAACATCTAAGCAGAAACCACAGAAAAGGTGAATGTGTTGTCAAATGCTTTAC
* * * *
126113 GAACATCTAAGCAGAAGCCACAGAAAAGGATGAAGGTGTTGTCAAGTGTTTTAC
1 GAACATCTAAGCAGAAACCACAGAAAAGG-TGAATGTGTTGTCAAATGCTTTAC
* * * *
126167 G-TC-TC-GA-CAGAAACCACAGGAAAAGATGAATGTATTGTCAAA
1 GAACATCTAAGCAGAAACCACA-GAAAAGGTGAATGTGTTGTCAAA
126209 AATTTTACGA
Statistics
Matches: 80, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
50 23 0.29
51 7 0.09
52 2 0.03
53 26 0.32
54 22 0.28
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.23
Consensus pattern (53 bp):
GAACATCTAAGCAGAAACCACAGAAAAGGTGAATGTGTTGTCAAATGCTTTAC
Found at i:126195 original size:50 final size:54
Alignment explanation
Indices: 126060--126208 Score: 157
Period size: 50 Copynumber: 2.9 Consensus size: 54
126050 CAATGATTGA
* * *
126060 GAACATCTTAGCAGAAATCACAGG-AAAGGTGAATGTGTTGTCAAATGCTTTAC
1 GAACATCTAAGCAGAAACCACAGGAAAAGATGAATGTGTTGTCAAATGCTTTAC
* * * *
126113 GAACATCTAAGCAGAAGCCACA-GAAAAGGATGAAGGTGTTGTCAAGTGTTTTAC
1 GAACATCTAAGCAGAAACCACAGGAAAA-GATGAATGTGTTGTCAAATGCTTTAC
* * *
126167 G-TC-TC-GA-CAGAAACCACAGGAAAAGATGAATGTATTGTCAAA
1 GAACATCTAAGCAGAAACCACAGGAAAAGATGAATGTGTTGTCAAA
126209 AATTTTACGA
Statistics
Matches: 80, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
50 25 0.31
51 6 0.08
52 3 0.04
53 23 0.29
54 23 0.29
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.23
Consensus pattern (54 bp):
GAACATCTAAGCAGAAACCACAGGAAAAGATGAATGTGTTGTCAAATGCTTTAC
Found at i:126570 original size:22 final size:22
Alignment explanation
Indices: 126541--126595 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
126531 ATCTGCACTC
126541 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
* *
126563 TTTAAAGATGATATATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
126585 TTCAAAGATGA
1 TTCAAAGATGA
126596 AAGCTTTATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.42
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:127239 original size:113 final size:113
Alignment explanation
Indices: 127002--127295 Score: 457
Period size: 113 Copynumber: 2.6 Consensus size: 113
126992 AGTTCAAATC
* * *
127002 CATCATTCAATGGATCAACATTTCTAG-AAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTCGATGGATCAACATTGCCAGAAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
127066 AGAATAAGTTCATAATGAGAAGAACTTGTTTAACTTTTCGCTTGAATT
66 AGAATAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATT
** * ***
127114 TTTCATTCGATGGATCAGCATTGCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTCGATGGATCAACATTGCCAGAAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
127179 AGAATAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATT
66 AGAATAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATT
* *
127227 CATCACTT-GATGGATCAATATTTCCAGAAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
1 CATCA-TTCGATGGATCAACATTGCCAGAAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
127291 AAGAA
65 AAGAA
127296 CTCATCTGAA
Statistics
Matches: 163, Mismatches: 17, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
112 21 0.13
113 140 0.86
114 2 0.01
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (113 bp):
CATCATTCGATGGATCAACATTGCCAGAAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
AGAATAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATT
Found at i:127293 original size:20 final size:20
Alignment explanation
Indices: 127270--127315 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
127260 TTCATAATGA
127270 GAAGAACTCATCTGAAGAAG
1 GAAGAACTCATCTGAAGAAG
*
127290 GAAGAACTCATCTGAAGAAT
1 GAAGAACTCATCTGAAGAAG
127310 GAAGAA
1 GAAGAA
127316 GAAGTTCATA
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:0.48, C:0.13, G:0.24, T:0.15
Consensus pattern (20 bp):
GAAGAACTCATCTGAAGAAG
Found at i:127300 original size:133 final size:133
Alignment explanation
Indices: 127157--127428 Score: 438
Period size: 133 Copynumber: 2.0 Consensus size: 133
127147 TTCATAATGA
*
127157 GAAGAACTCATCTGAAGAAGGAAGAATAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTT
1 GAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTT
* * *
127222 GAATTCATCACTT-GATGGATCAATATTTCCAGAAAGAGTTCATAATGAGAAGAACTCATCTGAA
66 GAATTCATCA-TTCGATGGATCAACATTGCCAGAAAGAGTTCATAATAAGAAGAACTCATCTGAA
127286 GAAG
130 GAAG
*
127290 GAAGAACTCATCTGAAGAATGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTT
1 GAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTT
* ***
127355 GAATTCATCATTCGATGGATCAGCATTGCCAGGGCGAGTTCATAATAAGAAGAACTCATCTGAAG
66 GAATTCATCATTCGATGGATCAACATTGCCAGAAAGAGTTCATAATAAGAAGAACTCATCTGAAG
*
127420 GAG
131 AAG
127423 GAAGAA
1 GAAGAA
127429 GAAGTTCATA
Statistics
Matches: 128, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
132 2 0.02
133 126 0.98
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (133 bp):
GAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTT
GAATTCATCATTCGATGGATCAACATTGCCAGAAAGAGTTCATAATAAGAAGAACTCATCTGAAG
AAG
Found at i:127407 original size:113 final size:112
Alignment explanation
Indices: 127290--128348 Score: 1252
Period size: 113 Copynumber: 9.4 Consensus size: 112
127280 TCTGAAGAAG
* *
127290 GAAGAACTCATCTGAAGAATGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTT
1 GAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTT-GCTC
* * * **** *
127355 GAATTCATCAT-TCGATGGATCAGCATTGCCAGGGCGAGTTCATAATAA
65 AAATCCATCATCT-GATGGATCAGCATTTCCAGAAAAAGTTCATAATGA
* *
127403 GAAGAACTCATCTGAAGGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACTTTTTGCTC
1 GAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC-TTTTGCTC
* * *
127468 AAATCCATCATCTGATGGATCAGCTTTTCCATAAAAAGTTTATAATGA
65 AAATCCATCATCTGATGGATCAGCATTTCCAGAAAAAGTTCATAATGA
* * *
127516 GAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTACTC
1 GAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTTGCTC
127581 AAATCCATCATCTGATGGATCAGCATTTCCAGAAAAAGTTCATAATGA
65 AAATCCATCATCTGATGGATCAGCATTTCCAGAAAAAGTTCATAATGA
* *
127629 GAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
1 GAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTTGCTC
127694 AAATCCATCATCTGATGGATCAGCATTTCCAGAAAAAGTTCATAATGA
65 AAATCCATCATCTGATGGATCAGCATTTCCAGAAAAAGTTCATAATGA
* *
127742 GAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACATTTTGCTC
1 GAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC-TTTTGCTC
*
127807 AAATCCATCATCTGATGGATCAGCATTTCCAGAAATAGTTCATAATGA
65 AAATCCATCATCTGATGGATCAGCATTTCCAGAAAAAGTTCATAATGA
* *
127855 GAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCCACTTTTCGCTT
1 GAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTT-GCTC
* * * **** *
127920 GAATTCATCAT-TCGATGGATCAGCATTGCCAGGGCGAGTTCATAATAA
65 AAATCCATCATCT-GATGGATCAGCATTTCCAGAAAAAGTTCATAATGA
* * *
127968 GAAGAACTCATCTGAAGAAGGAAGAAGAAGTCCATAATGAGAAGAACTTGTTTAACTTTTTGCTT
1 GAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC-TTTTGCTC
* * * *
128033 GAATTCATCA-CTTGATGGATCAACATTTCCAGAGAAAGTTCATAATGA
65 AAATCCATCATC-TGATGGATCAGCATTTCCAGAAAAAGTTCATAATGA
* * *
128081 GAAGAACTCATCTGAAAAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCGACTTTAG-T--
1 GAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTGCTCA
* * *
128143 --T---TGATC-GACGGATCAACATTTCCAG--AAAGTTCATAATGA
66 AATCCATCATCTGATGGATCAGCATTTCCAGAAAAAGTTCATAATGA
* * *
128182 GAAGAACTTATCTAAAG-AGAAAGAAGAAGTTCATAATGAGAA-AAGCTTGTTCAACCTTTTGCA
1 GAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAA-CTTGTTCAA-CTTTTGC-
** ** *** * *
128245 TGACTCTATCACAGAAGGAGATAGATCAGCATCAACTTTTCCAGAGAAAGTTCATAATGA
63 T--C-AAATC-CATCATCTGATGGATCAG---C-A--TTTCCAGAAAAAGTTCATAATGA
* *
128305 GAAGAACTTATCTGAAG-AGGAAGAAGAAATTCATAATGAGAAGA
1 GAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
128349 GCTTATTTAA
Statistics
Matches: 842, Mismatches: 69, Indels: 59
0.87 0.07 0.06
Matches are distributed among these distances:
99 2 0.00
100 32 0.04
101 33 0.04
103 19 0.02
104 2 0.00
105 1 0.00
107 1 0.00
110 1 0.00
111 1 0.00
112 10 0.01
113 658 0.78
114 12 0.01
115 7 0.01
118 1 0.00
119 1 0.00
121 7 0.01
123 53 0.06
124 1 0.00
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.27
Consensus pattern (112 bp):
GAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTGCTCA
AATCCATCATCTGATGGATCAGCATTTCCAGAAAAAGTTCATAATGA
Found at i:128231 original size:100 final size:102
Alignment explanation
Indices: 128049--128233 Score: 304
Period size: 100 Copynumber: 1.8 Consensus size: 102
128039 ATCACTTGAT
*
128049 GGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAAAAGGAAGAAGAAGTTC
1 GGATCAACATTTCCA-AGAAAGTTCATAATGAGAAGAACTCATCTGAAAAAGAAAGAAGAAGTTC
128114 ATAATGAGAAGAACTTGTTCGACTTTAGTTTGATCGAC
65 ATAATGAGAAGAACTTGTTCGACTTTAGTTTGATCGAC
* *
128152 GGATCAACATTTCC-AGAAAGTTCATAATGAGAAGAACTTATCT-AAAGAGAAAGAAGAAGTTCA
1 GGATCAACATTTCCAAGAAAGTTCATAATGAGAAGAACTCATCTGAAAAAGAAAGAAGAAGTTCA
128215 TAATGAGAA-AAGCTTGTTC
66 TAATGAGAAGAA-CTTGTTC
128234 AACCTTTTGC
Statistics
Matches: 78, Mismatches: 3, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
99 2 0.03
100 34 0.44
101 28 0.36
103 14 0.18
ACGTcount: A:0.42, C:0.13, G:0.21, T:0.25
Consensus pattern (102 bp):
GGATCAACATTTCCAAGAAAGTTCATAATGAGAAGAACTCATCTGAAAAAGAAAGAAGAAGTTCA
TAATGAGAAGAACTTGTTCGACTTTAGTTTGATCGAC
Found at i:128295 original size:123 final size:122
Alignment explanation
Indices: 128154--128465 Score: 427
Period size: 123 Copynumber: 2.6 Consensus size: 122
128144 TGATCGACGG
128154 ATCAACATTTCC--AGAAAGTTCATAATGAGAAGAACTTATCTAAAGAGAAAGAAGAAGTTCATA
1 ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCT-AAGAGAAAGAAGAAGTTCATA
* * * *
128217 ATGAGAAAAGCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAGC
65 ATGAGAAAAGCTTATTCAACCTTTTGCATAACTCTATCACAGAAGCAGATAGATCAAC
* * *
128275 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAATTCATA
1 ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCT-AAGAGAAAGAAGAAGTTCATA
* * **
128340 ATGAGAAGAGCTTATTTAACCTTTTGTTTAACTCTATCACAGAAGCAGATAGATCAAC
65 ATGAGAAAAGCTTATTCAACCTTTTGCATAACTCTATCACAGAAGCAGATAGATCAAC
** * * *
128398 ATCAACATTTCCAGA-ATTGTTCATAATGAGAAGAACTCATCT--GAAAAAGAATAAGTTCATAA
1 ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTAAGAGAAAGAAGAAGTTCATAA
128460 TGAGAA
66 TGAGAA
128466 GAATTTCTTC
Statistics
Matches: 169, Mismatches: 20, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
119 22 0.13
121 11 0.07
122 24 0.14
123 112 0.66
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.26
Consensus pattern (122 bp):
ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTAAGAGAAAGAAGAAGTTCATAA
TGAGAAAAGCTTATTCAACCTTTTGCATAACTCTATCACAGAAGCAGATAGATCAAC
Found at i:128509 original size:119 final size:118
Alignment explanation
Indices: 128154--128509 Score: 405
Period size: 123 Copynumber: 2.9 Consensus size: 118
128144 TGATCGACGG
*
128154 ATCAACATTTCCAGAAAGTTCATAATGAGAAGAACTTATCTAAAGAGAAAGAAGAAGTTCATAAT
1 ATCAACATTTCCAGAAAGTTCATAATGAGAAGAACTTATCT---GAAAAAGAAGAAGTTCATAAT
* * *
128219 GAGAA-AAGCTTGTTCAACCTTTTGC-ATGACTCTATCACAGAAGGAGATAGATCAGC
63 GAGAAGAA-CTTATTCAACCTTTTGCTA-GACTCTATCACAGAAGAAGATAGATCAAC
* *
128275 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAATTCATA
1 ATCAACATTTCC--AGAAAGTTCATAATGAGAAGAACTTATCTGAA-A--AAGAAGAAGTTCATA
* * * *
128340 ATGAGAAGAGCTTATTTAACCTTTTGTTTA-ACTCTATCACAGAAGCAGATAGATCAAC
61 ATGAGAAGAACTTATTCAACCTTTTG-CTAGACTCTATCACAGAAGAAGATAGATCAAC
* * *
128398 ATCAACATTTCCAGAATTGTTCATAATGAGAAGAACTCATCTGAAAAAGAATAAGTTCATAATGA
1 ATCAACATTTCCAGAA-AGTTCATAATGAGAAGAACTTATCTGAAAAAGAAGAAGTTCATAATGA
* * * * *
128463 GAAGAATTTCTTCAACTTTTTGCTAGATTAC-ATCATAGAAGAAGATA
65 GAAGAACTTATTCAACCTTTTGCTAGACT-CTATCACAGAAGAAGATA
128510 AATTGTCATC
Statistics
Matches: 201, Mismatches: 23, Indels: 24
0.81 0.09 0.10
Matches are distributed among these distances:
118 2 0.01
119 50 0.25
120 3 0.01
121 17 0.08
122 26 0.13
123 101 0.50
124 1 0.00
125 1 0.00
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.28
Consensus pattern (118 bp):
ATCAACATTTCCAGAAAGTTCATAATGAGAAGAACTTATCTGAAAAAGAAGAAGTTCATAATGAG
AAGAACTTATTCAACCTTTTGCTAGACTCTATCACAGAAGAAGATAGATCAAC
Found at i:128698 original size:3 final size:3
Alignment explanation
Indices: 128692--128738 Score: 51
Period size: 3 Copynumber: 15.3 Consensus size: 3
128682 TTTTTATTTG
* *
128692 ATT ATT ATT -TAT AAT ATT ATT ATT ATT ATT ATG ATAT ATT ATT ATT
1 ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT
128738 A
1 A
128739 AATAATAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
2 1 0.03
3 34 0.92
4 2 0.05
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:129352 original size:11 final size:11
Alignment explanation
Indices: 129338--129362 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
129328 AAGAGCTGCC
129338 GAACCACTGTG
1 GAACCACTGTG
129349 GAACCACTGTG
1 GAACCACTGTG
129360 GAA
1 GAA
129363 TCAAAAGTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.24, G:0.28, T:0.16
Consensus pattern (11 bp):
GAACCACTGTG
Found at i:133143 original size:42 final size:42
Alignment explanation
Indices: 133032--133251 Score: 151
Period size: 42 Copynumber: 5.2 Consensus size: 42
133022 GTTTGTAGTA
* * * * *
133032 AAAAACGCTGCAATAGAGT-TGACATATAGCGGCGCTTTTACAA
1 AAAAACGCTGCAATAGAGTAT-AAATTTAGCGGCGATTTAAC-C
* * * * *
133075 AAAAATGCCGCAATAGGGTGGTAAA-TTAGCGGCGTTTTATACC
1 AAAAACGCTGCAATAGAGT-ATAAATTTAGCGGCGATTTA-ACC
* * * *
133118 ACAAACACTGCAATAGAGTATAAATTTTGCGGCGATTTAGCC
1 AAAAACGCTGCAATAGAGTATAAATTTAGCGGCGATTTAACC
* * * *
133160 AAAAACGCCGCAATAGAGTATAAATTTTGCGGCGATTGAGCC
1 AAAAACGCTGCAATAGAGTATAAATTTAGCGGCGATTTAACC
* * * *
133202 AAAAACGCTACAATATAGTGGTAAA-TTAGCGGTG-TTTATACC
1 AAAAACGCTGCAATAGAGT-ATAAATTTAGCGGCGATTTA-ACC
*
133244 ACAAACGC
1 AAAAACGC
133252 CATATATATT
Statistics
Matches: 141, Mismatches: 30, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
41 3 0.02
42 76 0.54
43 57 0.40
44 4 0.03
45 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.24
Consensus pattern (42 bp):
AAAAACGCTGCAATAGAGTATAAATTTAGCGGCGATTTAACC
Found at i:133486 original size:40 final size:42
Alignment explanation
Indices: 133292--133485 Score: 267
Period size: 41 Copynumber: 4.8 Consensus size: 42
133282 TCCTCAAATG
* * *
133292 CTGCAATAGTGATAATCAATAGTGGCGGTTTTAG-AAAACGT
1 CTGCAATAGTGTTAATCAATAGTGGCGTTTTTAGAAAAACGC
*
133333 C-GCAATAGTGTTAATCAATAATGGCGTTTTTAGAAAAACGC
1 CTGCAATAGTGTTAATCAATAGTGGCGTTTTTAGAAAAACGC
*
133374 CT-CAATAGTGTTAATCAATAGTGGCCTTTTTAGAAAAACG-
1 CTGCAATAGTGTTAATCAATAGTGGCGTTTTTAGAAAAACGC
*
133414 CTGCAATAGTGTTAATCAATAGTGGCGTTTTTTA-ACAAACGC
1 CTGCAATAGTGTTAATCAATAGTGGCG-TTTTTAGAAAAACGC
*
133456 CAG-AATAGTG-TAATCAATAGTGGCGTTTTT
1 CTGCAATAGTGTTAATCAATAGTGGCGTTTTT
133486 TTTGTATAAA
Statistics
Matches: 139, Mismatches: 9, Indels: 12
0.87 0.06 0.08
Matches are distributed among these distances:
39 5 0.04
40 46 0.33
41 80 0.58
42 8 0.06
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.32
Consensus pattern (42 bp):
CTGCAATAGTGTTAATCAATAGTGGCGTTTTTAGAAAAACGC
Found at i:133486 original size:82 final size:81
Alignment explanation
Indices: 133295--133485 Score: 271
Period size: 81 Copynumber: 2.4 Consensus size: 81
133285 TCAAATGCTG
*
133295 CAATAGTGATAATCAATAGTGGCGGTTTTAGAAAACGTCGCAATAGTGTTAATCAATAATGGCGT
1 CAATAGTGATAATCAATAGTGGCGTTTTTAGAAAACGTCGCAATAGTGTTAATCAATAATGGCGT
*
133360 TTTTAGAAAAACGCCT
66 TTTTAGAAAAACGCCA
* * *
133376 CAATAGTGTTAATCAATAGTGGCCTTTTTAGAAAAACG-CTGCAATAGTGTTAATCAATAGTGGC
1 CAATAGTGATAATCAATAGTGGCGTTTTTAG-AAAACGTC-GCAATAGTGTTAATCAATAATGGC
*
133440 GTTTTTTA-ACAAACGCCA
64 G-TTTTTAGAAAAACGCCA
*
133458 GAATAGTG-TAATCAATAGTGGCGTTTTT
1 CAATAGTGATAATCAATAGTGGCGTTTTT
133486 TTTGTATAAA
Statistics
Matches: 99, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
81 48 0.48
82 45 0.45
83 6 0.06
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (81 bp):
CAATAGTGATAATCAATAGTGGCGTTTTTAGAAAACGTCGCAATAGTGTTAATCAATAATGGCGT
TTTTAGAAAAACGCCA
Found at i:134232 original size:41 final size:42
Alignment explanation
Indices: 134160--134262 Score: 113
Period size: 41 Copynumber: 2.5 Consensus size: 42
134150 GGATACAAAT
* * *
134160 GCCGCAATAGAGTTGTT-ATTAGGTGGCGTTTT-TTAATAAAC
1 GCCGCAATAGAGTAGTTCCTTAGGTGGCGTTTTCGTAA-AAAC
* * *
134201 GCCGCAATAGAATAGTTCCTTA-GTGGTGTTTTCGTAAAAAT
1 GCCGCAATAGAGTAGTTCCTTAGGTGGCGTTTTCGTAAAAAC
*
134242 GCAGCAATAGAGTAGTTCCTT
1 GCCGCAATAGAGTAGTTCCTT
134263 TGCGGCGTTT
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
41 46 0.88
42 6 0.12
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (42 bp):
GCCGCAATAGAGTAGTTCCTTAGGTGGCGTTTTCGTAAAAAC
Found at i:134519 original size:18 final size:18
Alignment explanation
Indices: 134490--134543 Score: 72
Period size: 18 Copynumber: 3.0 Consensus size: 18
134480 ATTCCTAACA
*
134490 TTCTCTACCAGCGCAACC
1 TTCTCCACCAGCGCAACC
* *
134508 TTCTCCAGCAGCGCAAGC
1 TTCTCCACCAGCGCAACC
*
134526 TTCTCCACCAGCACAACC
1 TTCTCCACCAGCGCAACC
134544 ACCACCAGCG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.24, C:0.44, G:0.13, T:0.19
Consensus pattern (18 bp):
TTCTCCACCAGCGCAACC
Found at i:136673 original size:6 final size:6
Alignment explanation
Indices: 136662--136688 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
136652 CACCAAACAT
136662 TTCTGG TTCTGG TTCTGG TTCTGG TTC
1 TTCTGG TTCTGG TTCTGG TTCTGG TTC
136689 ATCGAAATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.30, T:0.52
Consensus pattern (6 bp):
TTCTGG
Found at i:137163 original size:21 final size:21
Alignment explanation
Indices: 137137--137191 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
137127 GAAAATGAAG
*
137137 GGAAGCAGAGAGAGCAGCAAT
1 GGAAGCAGAGAGAGCAGCAAC
* *
137158 GGAAGCA-ACCAGAGCAGCAGC
1 GGAAGCAGA-GAGAGCAGCAAC
137179 GGAAGCAGAGAGA
1 GGAAGCAGAGAGA
137192 AAACAGCGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 1 0.04
21 26 0.93
22 1 0.04
ACGTcount: A:0.42, C:0.18, G:0.38, T:0.02
Consensus pattern (21 bp):
GGAAGCAGAGAGAGCAGCAAC
Found at i:137225 original size:21 final size:21
Alignment explanation
Indices: 137199--137238 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
137189 AGAAAACAGC
*
137199 GGCAGCATAAAGAGAAGCAAT
1 GGCAGCACAAAGAGAAGCAAT
137220 GGCAGCACAAAGAGAAGCA
1 GGCAGCACAAAGAGAAGCA
137239 GCGACGACAC
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:0.47, C:0.17, G:0.30, T:0.05
Consensus pattern (21 bp):
GGCAGCACAAAGAGAAGCAAT
Found at i:138635 original size:14 final size:14
Alignment explanation
Indices: 138616--138645 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
138606 TTGAGTCATA
138616 CCGCCCCGCATCCG
1 CCGCCCCGCATCCG
138630 CCGCCCCGCATCCG
1 CCGCCCCGCATCCG
138644 CC
1 CC
138646 CGCATCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.07, C:0.67, G:0.20, T:0.07
Consensus pattern (14 bp):
CCGCCCCGCATCCG
Done.