Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002731.1 Hibiscus syriacus cultivar Beakdansim tig00005635_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: 185687
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:3436 original size:75 final size:76
Alignment explanation
Indices: 3317--3531 Score: 328
Period size: 76 Copynumber: 2.9 Consensus size: 76
3307 TAAAAGATCT
* * *
3317 TAAATCCTAATT-AAACACTTAAAA-CTATTTAAACTAAAATACCTAAAACAAAAATAATAT-TT
1 TAAATCCTAATTAAAATAC-TAAAACCTATTTAAACTAAAATACCTAAAACAAAAATAAAATATA
3379 AAAATAATATCC
65 AAAATAATATCC
*
3391 TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAA
1 TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAAATAAAATATAA
3456 AAATAATATCC
66 AAATAATATCC
* * * *
3467 TAAAACTTAATTAAAATACTAAAACATATTTAAACTAAAATACCTAAAACAAATATAAAATATAA
1 TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAAATAAAATATAA
3532 TGTTTAAAAT
Statistics
Matches: 130, Mismatches: 8, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
74 17 0.13
75 39 0.30
76 74 0.57
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.28
Consensus pattern (76 bp):
TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAAATAAAATATAA
AAATAATATCC
Found at i:3450 original size:44 final size:42
Alignment explanation
Indices: 3402--3528 Score: 114
Period size: 44 Copynumber: 3.2 Consensus size: 42
3392 AAATCCTAAT
3402 TAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGA
1 TAAAATACTAAAA-CTATTTAAACTAAAATACCTAAAACAAA-A
* *
3446 TAAAATA-TAAAA--A--T-AA-T---AT-CCTAAAACTTAAT
1 TAAAATACTAAAACTATTTAAACTAAAATACCTAAAAC-AAAA
3478 TAAAATACTAAAACATATTTAAACTAAAATACCTAAAACAAATA
1 TAAAATACTAAAAC-TATTTAAACTAAAATACCTAAAACAAA-A
3522 TAAAATA
1 TAAAATA
3529 TAATGTTTAA
Statistics
Matches: 65, Mismatches: 4, Indels: 28
0.67 0.04 0.29
Matches are distributed among these distances:
32 15 0.23
33 9 0.14
36 2 0.03
37 2 0.03
38 2 0.03
39 2 0.03
40 2 0.03
43 9 0.14
44 22 0.34
ACGTcount: A:0.61, C:0.13, G:0.01, T:0.26
Consensus pattern (42 bp):
TAAAATACTAAAACTATTTAAACTAAAATACCTAAAACAAAA
Found at i:3525 original size:25 final size:24
Alignment explanation
Indices: 3478--3525 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
3468 AAAACTTAAT
* *
3478 TAAAATACTAAAACATATTTAAAC
1 TAAAATACTAAAACAAATATAAAC
3502 TAAAATACCTAAAACAAATATAAA
1 TAAAATA-CTAAAACAAATATAAA
3526 ATATAATGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.25
Consensus pattern (24 bp):
TAAAATACTAAAACAAATATAAAC
Found at i:7425 original size:21 final size:21
Alignment explanation
Indices: 7374--7430 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
7364 TGATCTTTTT
*
7374 AACAAATAAAATAAAAGAAAG
1 AACATATAAAATAAAAGAAAG
* **
7395 AA-ATTTTAAAATAAAAGAGTG
1 AACA-TATAAAATAAAAGAAAG
7416 AACATATAAAATAAA
1 AACATATAAAATAAA
7431 CGATGAAATA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
20 1 0.03
21 27 0.93
22 1 0.03
ACGTcount: A:0.68, C:0.04, G:0.09, T:0.19
Consensus pattern (21 bp):
AACATATAAAATAAAAGAAAG
Found at i:9618 original size:18 final size:18
Alignment explanation
Indices: 9595--9632 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
9585 AGATTCGGTC
*
9595 TTGTTTTTATTTTCTTCT
1 TTGTTTTAATTTTCTTCT
*
9613 TTGTTTTAATTTTTTTCT
1 TTGTTTTAATTTTCTTCT
9631 TT
1 TT
9633 TTGGGAAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.08, C:0.08, G:0.05, T:0.79
Consensus pattern (18 bp):
TTGTTTTAATTTTCTTCT
Found at i:14620 original size:17 final size:17
Alignment explanation
Indices: 14597--14643 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
14587 TCTCCCTATA
*
14597 CTATTTTTTATTTAATT
1 CTATTTTTTATTTAAGT
* *
14614 TTA-TTTTGAGTTTAAGT
1 CTATTTTTTA-TTTAAGT
14631 CTATTTTTTATTT
1 CTATTTTTTATTT
14644 TTGACATCAT
Statistics
Matches: 23, Mismatches: 5, Indels: 4
0.72 0.16 0.12
Matches are distributed among these distances:
16 5 0.22
17 13 0.57
18 5 0.22
ACGTcount: A:0.21, C:0.04, G:0.06, T:0.68
Consensus pattern (17 bp):
CTATTTTTTATTTAAGT
Found at i:20401 original size:29 final size:29
Alignment explanation
Indices: 20359--20429 Score: 133
Period size: 29 Copynumber: 2.4 Consensus size: 29
20349 AGGAGATAGG
*
20359 CGCATGTTAGCACTCTTGCATGGGGCTGA
1 CGCATATTAGCACTCTTGCATGGGGCTGA
20388 CGCATATTAGCACTCTTGCATGGGGCTGA
1 CGCATATTAGCACTCTTGCATGGGGCTGA
20417 CGCATATTAGCAC
1 CGCATATTAGCAC
20430 ACCTCAAACC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.21, C:0.25, G:0.27, T:0.27
Consensus pattern (29 bp):
CGCATATTAGCACTCTTGCATGGGGCTGA
Found at i:28392 original size:17 final size:17
Alignment explanation
Indices: 28370--28402 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
28360 ACCTTCTGAA
28370 AATTTAAATTTTTATAT
1 AATTTAAATTTTTATAT
*
28387 AATTTAATTTTTTATA
1 AATTTAAATTTTTATA
28403 GTTTATTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
AATTTAAATTTTTATAT
Found at i:28402 original size:15 final size:16
Alignment explanation
Indices: 28370--28407 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
28360 ACCTTCTGAA
28370 AATTTAAATTTTTATAT
1 AATTT-AATTTTTATAT
28387 AATTTAATTTTT-TAT
1 AATTTAATTTTTATAT
*
28402 AGTTTA
1 AATTTA
28408 TTATAATTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 8 0.40
16 7 0.35
17 5 0.25
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (16 bp):
AATTTAATTTTTATAT
Found at i:28864 original size:19 final size:21
Alignment explanation
Indices: 28827--28870 Score: 67
Period size: 19 Copynumber: 2.2 Consensus size: 21
28817 TTCATTTGTC
28827 AATT-TTTTAGTTCAATTAAA
1 AATTATTTTAGTTCAATTAAA
28847 AATTATTTTA-TT-AATTAAA
1 AATTATTTTAGTTCAATTAAA
28866 AATTA
1 AATTA
28871 AACTTCAACC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 12 0.52
20 6 0.26
21 5 0.22
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (21 bp):
AATTATTTTAGTTCAATTAAA
Found at i:29176 original size:2 final size:2
Alignment explanation
Indices: 29169--29194 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
29159 AATTATTTTA
29169 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
29195 TTTTTTTACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33565 original size:24 final size:26
Alignment explanation
Indices: 33537--33585 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
33527 ATAAAAACAT
*
33537 ATAAT-TATTAAGT-GTAAAATAATA
1 ATAATATAATAAGTAGTAAAATAATA
33561 ATAATGATAATAAGTAGTAAAATAA
1 ATAAT-ATAATAAGTAGTAAAATAA
33586 AAAACGTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 5 0.24
26 7 0.33
27 9 0.43
ACGTcount: A:0.57, C:0.00, G:0.10, T:0.33
Consensus pattern (26 bp):
ATAATATAATAAGTAGTAAAATAATA
Found at i:34532 original size:36 final size:37
Alignment explanation
Indices: 34492--34563 Score: 103
Period size: 36 Copynumber: 2.0 Consensus size: 37
34482 GTTTAAAACA
34492 TAGCAAAATTCTATCATATTTTT-AGGAG-TTGAATCC
1 TAGCAAAATTCTATCATATTTTTGA-GAGTTTGAATCC
* *
34528 TAGCATAATTCTATCCTATTTTTGAGAGTTTGAATC
1 TAGCAAAATTCTATCATATTTTTGAGAGTTTGAATC
34564 TTAGTAGGAC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
36 24 0.75
37 8 0.25
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.42
Consensus pattern (37 bp):
TAGCAAAATTCTATCATATTTTTGAGAGTTTGAATCC
Found at i:35339 original size:106 final size:107
Alignment explanation
Indices: 35034--35657 Score: 558
Period size: 109 Copynumber: 5.9 Consensus size: 107
35024 GTTCCGAGTC
* * ** * * **
35034 CAATATCCTCCGTTGTGAAGTTGAAATTGGTTCTGGAACCGGGAAATTGTTTGTTGACAGTCAGC
1 CAATATCCTCCGTCGTGAAGTTGAAATTGGCTCT-GAAATGAGAAAATGTTTGTTGACAACCAGC
* * * *
35099 CGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTCGAGT-C-
65 CGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTGCA
* * * * * *
35140 TAATATCCTTCAC-T-GTGAAGTTGAAATTGACTCTG-AA--CG-AAAT-CTTATTGACAATCAG
1 CAATATCC-TC-CGTCGTGAAGTTGAAATTGGCTCTGAAATGAGAAAATGTTTGTTGACAACCAG
35198 CCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGT-C-
64 CCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTGCA
* * * *
35240 CAATATCCTTCG-CTGTGAAGTTGAAATTGGCTCTGAAATTTAAAAAATGTTTATTGACAACCAG
1 CAATATCCTCCGTC-GTGAAGTTGAAATTGGCTCTGAAA-TGAGAAAATGTTTGTTGACAACCAG
**
35304 TTGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTGGCA
64 CCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGT-GCA
* * * ** * *
35349 CGATATCCTCCGTCGTGGAGTTGAAA-TCGCGGATGAAACTGA-AAAGTTGTTCGTTGACAACCA
1 CAATATCCTCCGTCGTGAAGTTGAAATTGGC-TCTGAAA-TGAGAAA-ATGTTTGTTGACAACCA
* *
35412 GCCGTCTCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGGGTAGCA
63 GCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGT-GCA
* * * * * ** * *
35458 CGATATCCTCCGTCGTGGAGTTGAAATTGGTTCTGGAATTGGGAAGTTGTTCGTTGACAACCAGT
1 CAATATCCTCCGTCGTGAAGTTGAAATTGGCTCT-GAAATGAGAAAATGTTTGTTGACAACCAGC
*
35523 CGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGGGTAGCA
65 CGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGT-GCA
* * * * * * * * *
35567 CGATATCCTCCGTCGTGGAGTTGAAATCGGTTCCGAAATTAGGAAAT-TATTGTTGGCAACCAAC
1 CAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGAAATGAGAAAATGT-TTGTTGACAACCAGC
35631 CGTCCCTTCGTTGTGAAGTTGAACTTG
65 CGTCCCTTCGTTGTGAAGTTGAACTTG
35658 ACTCTAGCTA
Statistics
Matches: 438, Mismatches: 59, Indels: 40
0.82 0.11 0.07
Matches are distributed among these distances:
98 1 0.00
99 1 0.00
100 77 0.18
101 5 0.01
102 1 0.00
104 1 0.00
105 5 0.01
106 77 0.18
107 4 0.01
108 53 0.12
109 205 0.47
110 8 0.02
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (107 bp):
CAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGAAATGAGAAAATGTTTGTTGACAACCAGCC
GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTGCA
Found at i:35425 original size:109 final size:109
Alignment explanation
Indices: 35187--35657 Score: 569
Period size: 109 Copynumber: 4.4 Consensus size: 109
35177 CGAAATCTTA
* *
35187 TTGACAATCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGT--C-CAATATCCT
1 TTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTAGCACGATATCCT
* * * * ** **
35249 TCG-CTGTGAAGTTGAAATTGGCTCTGAAATTTAAAAAATGTTTA
66 CCGTC-GTGGAGTTGAAATTGGCGCTGAAATTGAAAAGTTGTTCG
** *
35293 TTGACAACCAGTTGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTGGCACGATATCCT
1 TTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTAGCACGATATCCT
* * *
35358 CCGTCGTGGAGTTGAAA-TCGCGGATGAAACTGAAAAGTTGTTCG
66 CCGTCGTGGAGTTGAAATTGGC-GCTGAAATTGAAAAGTTGTTCG
* *
35402 TTGACAACCAGCCGTCTCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGGGTAGCACGATATCCT
1 TTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTAGCACGATATCCT
** * **
35467 CCGTCGTGGAGTTGAAATTGGTTCTGGAATTGGGAAGTTGTTCG
66 CCGTCGTGGAGTTGAAATTGGCGCTGAAATTGAAAAGTTGTTCG
* *
35511 TTGACAACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGGGTAGCACGATATCCT
1 TTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTAGCACGATATCCT
* ** * * *
35576 CCGTCGTGGAGTTGAAATCGGTTCCGAAATTAGGAAA-TTATT-G
66 CCGTCGTGGAGTTGAAATTGGCGCTGAAATT-GAAAAGTTGTTCG
* *
35619 TTGGCAACCAACCGTCCCTTCGTTGTGAAGTTGAACTTG
1 TTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTG
35658 ACTCTAGCTA
Statistics
Matches: 320, Mismatches: 38, Indels: 12
0.86 0.10 0.03
Matches are distributed among these distances:
106 49 0.15
108 41 0.13
109 223 0.70
110 7 0.02
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (109 bp):
TTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTAGCACGATATCCT
CCGTCGTGGAGTTGAAATTGGCGCTGAAATTGAAAAGTTGTTCG
Found at i:35539 original size:218 final size:210
Alignment explanation
Indices: 35028--35657 Score: 679
Period size: 218 Copynumber: 3.0 Consensus size: 210
35018 AATATTGTTC
* **
35028 CGAGTCCAATATCCTCCGTTGTGAAGTTGAAATTGGTTCTGGAACCGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGTTCTGGAATTGGGAAATTGTTTGTTGACA
** * * * * *
35093 GTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTCGAGT-CTA--ATATCCTTCAC-T
66 ACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTGC-ACGATATCC-TC-CGT
* ** * * *
35154 -GTGAAGTTGAAATTGAC-TCTG-AAC-GAAA-TCTTATTGACAATCAGCCGTCCCTTCGTTGTG
128 CGTGGAGTTGAAA-TG-CGGATGAAACTGAAATTATTGTTGACAACCAGCCGTCCCTTCGTTGTG
35214 AAGTTGAACTTGTGTTGTCT
191 AAGTTGAACTTGTGTTGTCT
* * * *** * *
35234 CGAGTCCAATATCCTTCG-CTGTGAAGTTGAAATTGGCTCTGAAATTTAAAAAATGTTTATTGAC
1 CGAGTCCAATATCCTCCGTC-GTGAAGTTGAAATTGGTTCTGGAATTGGGAAATTGTTTGTTGAC
*
35298 AACCAGTTGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTGGCACGATATCCTCCGTC
65 AACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGT-GCACGATATCCTCCGTC
* *
35363 GTGGAGTTGAAATCGCGGATGAAACTGAAAAGTTGTTCGTTGACAACCAGCCGTCTCTTCGTTGT
129 GTGGAGTTGAAAT-GCGGATGAAACTG-AAA-TTATT-GTTGACAACCAGCCGTCCCTTCGTTGT
35428 GAAGTTGAACTTGTGTTGTCT
190 GAAGTTGAACTTGTGTTGTCT
* * * * *
35449 CGGGTAGCACGATATCCTCCGTCGTGGAGTTGAAATTGGTTCTGGAATTGGGAAGTTGTTCGTTG
1 CGAGT--C-CAATATCCTCCGTCGTGAAGTTGAAATTGGTTCTGGAATTGGGAAATTGTTTGTTG
*
35514 ACAACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGGGTAGCACGATATCCTCCG
63 ACAACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGT-GCACGATATCCTCCG
* * * *
35579 TCGTGGAGTTGAAAT-CGGTTCCGAAATTAGGAAATTATTGTTGGCAACCAACCGTCCCTTCGTT
127 TCGTGGAGTTGAAATGCGGAT--GAAACT--GAAATTATTGTTGACAACCAGCCGTCCCTTCGTT
35643 GTGAAGTTGAACTTG
188 GTGAAGTTGAACTTG
35658 ACTCTAGCTA
Statistics
Matches: 353, Mismatches: 48, Indels: 35
0.81 0.11 0.08
Matches are distributed among these distances:
206 91 0.26
207 2 0.01
208 6 0.02
209 20 0.06
210 3 0.01
211 1 0.00
212 3 0.01
214 3 0.01
215 49 0.14
216 4 0.01
217 38 0.11
218 128 0.36
219 4 0.01
220 1 0.00
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (210 bp):
CGAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGTTCTGGAATTGGGAAATTGTTTGTTGACA
ACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTGCACGATATCCTCCGTCGT
GGAGTTGAAATGCGGATGAAACTGAAATTATTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTT
GAACTTGTGTTGTCT
Found at i:36291 original size:65 final size:65
Alignment explanation
Indices: 36183--36352 Score: 297
Period size: 65 Copynumber: 2.6 Consensus size: 65
36173 GGGAGACAAA
36183 ATTT-TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAAT
1 ATTTATGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAAT
* *
36247 GTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAAT
1 ATTTATGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAAT
* *
36312 ATTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT
1 ATTTATGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATT
36353 TTGTTTCGAG
Statistics
Matches: 99, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
64 3 0.03
65 96 0.97
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (65 bp):
ATTTATGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAAT
Found at i:36358 original size:102 final size:102
Alignment explanation
Indices: 36252--36709 Score: 781
Period size: 102 Copynumber: 4.5 Consensus size: 102
36242 TCAATGTTTA
* * *
36252 TGTTTCAAGAGAAACTATCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATATTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
*
36317 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
66 TGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTT
*
36354 TGTTTCGAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
*
36419 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
66 TGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTT
*
36456 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTCCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
* **
36521 TGTTTCAAGAGAAACTATCTCAATGGAGACGGAATTT
66 TGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTT
*
36558 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAACTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
36623 TGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTT
66 TGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTT
* * **
36660 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAGTTTGTTTCAAGGGAAA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAA
36710 CTGTCTCAAG
Statistics
Matches: 336, Mismatches: 20, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
102 336 1.00
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (102 bp):
TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
TGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTT
Found at i:36442 original size:167 final size:169
Alignment explanation
Indices: 36152--36469 Score: 541
Period size: 167 Copynumber: 1.9 Consensus size: 169
36142 AAGATGATGC
*
36152 TTCAAGAGAAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGAGAAACTGTCTCAAGAGAGAC
1 TTCAAGAGAAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGAGAAACTATCTCAAGAGAGAC
*
36217 GAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGAC
66 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGAC
*
36282 GAAA-TTCATTTCAAGGGAAATGTTTTCAATATTTATGT
131 AAAATTTCATTTCAAGGGAAATGTTTTCAATATTTATGT
* *
36320 TTCAAGAG-AAACTGTCTCAAGGGAGACAAAATTTTGTTTCGAGGGAAACTATCTCAAGAGAGAC
1 TTCAAGAGAAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGAGAAACTATCTCAAGAGAGAC
* *
36384 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGAC
66 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGAC
**
36449 AAAATTTTGTTTCAAGGGAAA
131 AAAATTTCATTTCAAGGGAAA
36470 CTATCTCAAG
Statistics
Matches: 140, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
167 118 0.84
168 22 0.16
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (169 bp):
TTCAAGAGAAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGAGAAACTATCTCAAGAGAGAC
AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGAC
AAAATTTCATTTCAAGGGAAATGTTTTCAATATTTATGT
Found at i:37612 original size:22 final size:22
Alignment explanation
Indices: 37587--37637 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
37577 TTGTGTTTGG
37587 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
37609 TCAAAGGTTTGGTATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
37631 TCAAAGG
1 TCAAAGG
37638 ATTGATGGGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.25, C:0.12, G:0.27, T:0.35
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:38309 original size:20 final size:21
Alignment explanation
Indices: 38274--38336 Score: 67
Period size: 20 Copynumber: 3.0 Consensus size: 21
38264 CTTTTTGTTC
* *
38274 CCTTTTTTATTTTTGTTCTTT
1 CCTTTTTTGTTCTTGTTCTTT
*
38295 -CTTTTTTGTTCTTGTTTTTTT
1 CCTTTTTTGTTCTTG-TTCTTT
38316 CCTTTTTTGCTTCTT-TTCTTT
1 CCTTTTTTG-TTCTTGTTCTTT
38337 TTCTTTTTGC
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
20 12 0.34
21 10 0.29
22 8 0.23
23 5 0.14
ACGTcount: A:0.02, C:0.16, G:0.06, T:0.76
Consensus pattern (21 bp):
CCTTTTTTGTTCTTGTTCTTT
Found at i:38323 original size:11 final size:10
Alignment explanation
Indices: 38292--38344 Score: 52
Period size: 11 Copynumber: 4.9 Consensus size: 10
38282 ATTTTTGTTC
38292 TTTCTTTTTT
1 TTTCTTTTTT
*
38302 GTTCTTGTTTT
1 TTTCTT-TTTT
38313 TTTCCTTTTTT
1 TTT-CTTTTTT
*
38324 GCTTCTTTTCTT
1 -TTTCTTTT-TT
38336 TTTCTTTTT
1 TTTCTTTTT
38345 GCCCTTTTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
10 6 0.17
11 22 0.63
12 7 0.20
ACGTcount: A:0.00, C:0.15, G:0.06, T:0.79
Consensus pattern (10 bp):
TTTCTTTTTT
Found at i:38342 original size:22 final size:21
Alignment explanation
Indices: 38275--38344 Score: 72
Period size: 22 Copynumber: 3.3 Consensus size: 21
38265 TTTTTGTTCC
* * *
38275 CTTTTTTATTTTTG-TTCTTT
1 CTTTTTTGTTCTTGTTTTTTT
38295 CTTTTTTGTTCTTGTTTTTTT
1 CTTTTTTGTTCTTGTTTTTTT
38316 CCTTTTTTGCTTCTT-TTCTTTTT
1 -CTTTTTTG-TTCTTGTT-TTTTT
38339 CTTTTT
1 CTTTTT
38345 GCCCTTTTTG
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
20 12 0.28
21 5 0.12
22 16 0.37
23 10 0.23
ACGTcount: A:0.01, C:0.14, G:0.06, T:0.79
Consensus pattern (21 bp):
CTTTTTTGTTCTTGTTTTTTT
Found at i:38346 original size:21 final size:22
Alignment explanation
Indices: 38292--38344 Score: 74
Period size: 22 Copynumber: 2.4 Consensus size: 22
38282 ATTTTTGTTC
38292 TTTCTTTTTTG-TTCTTGTTTT
1 TTTCTTTTTTGCTTCTTGTTTT
38313 TTTCCTTTTTTGCTTCTT-TTCTT
1 TTT-CTTTTTTGCTTCTTGTT-TT
38336 TTTCTTTTT
1 TTTCTTTTT
38345 GCCCTTTTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
21 3 0.10
22 16 0.55
23 10 0.34
ACGTcount: A:0.00, C:0.15, G:0.06, T:0.79
Consensus pattern (22 bp):
TTTCTTTTTTGCTTCTTGTTTT
Found at i:41465 original size:24 final size:26
Alignment explanation
Indices: 41437--41485 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
41427 ATAAAAACAT
*
41437 ATAAT-TATTAAGT-GTAAAATAATA
1 ATAATATAATAAGTAGTAAAATAATA
41461 ATAATGATAATAAGTAGTAAAATAA
1 ATAAT-ATAATAAGTAGTAAAATAA
41486 AAAACGCAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 5 0.24
26 7 0.33
27 9 0.43
ACGTcount: A:0.57, C:0.00, G:0.10, T:0.33
Consensus pattern (26 bp):
ATAATATAATAAGTAGTAAAATAATA
Found at i:41964 original size:11 final size:11
Alignment explanation
Indices: 41886--41965 Score: 51
Period size: 11 Copynumber: 7.3 Consensus size: 11
41876 TTATATACGT
*
41886 TAATAGTAAAA
1 TAATATTAAAA
*
41897 TAATAAT-AAA
1 TAATATTAAAA
41907 TAATAGTTATAAA
1 TAATA-TTA-AAA
*
41920 T-ATATATATAA
1 TAATAT-TAAAA
41931 TAACT-TTAAAA
1 TAA-TATTAAAA
*
41942 -AACATTAAAA
1 TAATATTAAAA
*
41952 TAATATTAGAA
1 TAATATTAAAA
41963 TAA
1 TAA
41966 AAATAATTAA
Statistics
Matches: 54, Mismatches: 7, Indels: 16
0.70 0.09 0.21
Matches are distributed among these distances:
10 16 0.30
11 26 0.48
12 7 0.13
13 5 0.09
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.34
Consensus pattern (11 bp):
TAATATTAAAA
Found at i:42426 original size:36 final size:37
Alignment explanation
Indices: 42386--42461 Score: 111
Period size: 36 Copynumber: 2.1 Consensus size: 37
42376 GTTTAAAACA
42386 TAGCAAAATTCTATCATATTTTT-AGGAG-TTGAATCC
1 TAGCAAAATTCTATCATATTTTTGA-GAGTTTGAATCC
* *
42422 TAGCATAATTCTATCCTATTTTTGAGAGTTTGAATCC
1 TAGCAAAATTCTATCATATTTTTGAGAGTTTGAATCC
42459 TAG
1 TAG
42462 TAGGACGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
36 24 0.67
37 12 0.33
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.41
Consensus pattern (37 bp):
TAGCAAAATTCTATCATATTTTTGAGAGTTTGAATCC
Found at i:46152 original size:99 final size:99
Alignment explanation
Indices: 45981--46179 Score: 389
Period size: 99 Copynumber: 2.0 Consensus size: 99
45971 ATCACAGGAG
45981 AAACTTAGCTGAATAAGACCAACATTGAACCATCCAACCATAAGACATTTTACCCTATCCTCCTT
1 AAACTTAGCTGAATAAGACCAACATTGAACCATCCAACCATAAGACATTTTACCCTATCCTCCTT
46046 GAAAAAAGGTGATCCATCACTCGTGAAACTTATC
66 GAAAAAAGGTGATCCATCACTCGTGAAACTTATC
46080 AAACTTAGCTGAATAAGACCAACATTGAACCATCCAACCATAAGACATTTTACCCTATCCTCCTT
1 AAACTTAGCTGAATAAGACCAACATTGAACCATCCAACCATAAGACATTTTACCCTATCCTCCTT
*
46145 GACAAAAGGTGATCCATCACTCGTGAAACTTATC
66 GAAAAAAGGTGATCCATCACTCGTGAAACTTATC
46179 A
1 A
46180 GTTAAGAACT
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
99 99 1.00
ACGTcount: A:0.37, C:0.27, G:0.11, T:0.25
Consensus pattern (99 bp):
AAACTTAGCTGAATAAGACCAACATTGAACCATCCAACCATAAGACATTTTACCCTATCCTCCTT
GAAAAAAGGTGATCCATCACTCGTGAAACTTATC
Found at i:47647 original size:142 final size:146
Alignment explanation
Indices: 47338--47727 Score: 414
Period size: 142 Copynumber: 2.7 Consensus size: 146
47328 TATCATTCCT
* ** * *
47338 CAATTCAGAATAACAGTGGTTCCTAAAGCAGATTGACTACTCAAGCTATTGGAATTAGCGTACTC
1 CAATTCAGAATAACACTGGTTCCTAAAGGTGATTGACTACTCGAGCTATTGGAATTAGCATACTC
* *
47403 AGAGTGGCATATCCATAAGACAAAAGCCCTTAAAAGTTCATATGATTTATCTTCACATCCTAGCA
66 AGAGTGGCATATCCAAAAGACAAAAGCCCTTAAAAGTTCATATGATTTATCTTCACACCCTAGCA
* * *
47468 ACATTTTAACAATCCA
131 ACAATTAAACAATCAA
** * *
47484 CAATTCAGAATAGTACAGGTTCCTAAAGGTGATTGACTACTCGAGCTATTGAAATTAGCATACTC
1 CAATTCAGAATAACACTGGTTCCTAAAGGTGATTGACTACTCGAGCTATTGGAATTAGCATACTC
* * ** *
47549 A-AGT-G-ATGTTCAAAAGA-AAAAGGGCTTAAAAGTTCATATGATTTATCTTCACACCCTCGCA
66 AGAGTGGCATATCCAAAAGACAAAAGCCCTTAAAAGTTCATATGATTTATCTTCACACCCTAGCA
* * *
47610 ACAATTAAAGAGTTAA
131 ACAATTAAACAATCAA
* * * * * * * *
47626 CTATTCAAAATACCATTGGTTCCTAAAGGTGATTGACAACTCGAGCAATTGGAATTTGCATACAC
1 CAATTCAGAATAACACTGGTTCCTAAAGGTGATTGACTACTCGAGCTATTGGAATTAGCATACTC
* * * *
47691 -GTAG-CGAAGTATTCAAAAGATAAAAGCCCTTAAAAGT
66 AG-AGTGGCA-TATCCAAAAGACAAAAGCCCTTAAAAGT
47728 AACCTGGAAA
Statistics
Matches: 202, Mismatches: 36, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
142 104 0.51
143 12 0.06
144 2 0.01
145 13 0.06
146 71 0.35
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (146 bp):
CAATTCAGAATAACACTGGTTCCTAAAGGTGATTGACTACTCGAGCTATTGGAATTAGCATACTC
AGAGTGGCATATCCAAAAGACAAAAGCCCTTAAAAGTTCATATGATTTATCTTCACACCCTAGCA
ACAATTAAACAATCAA
Found at i:51087 original size:24 final size:24
Alignment explanation
Indices: 51055--51126 Score: 135
Period size: 24 Copynumber: 3.0 Consensus size: 24
51045 AAGATGGGTA
51055 TTGAGCAATGAGCATAGTCAAATG
1 TTGAGCAATGAGCATAGTCAAATG
51079 TTGAGCAATGAGCATAGTCAAATG
1 TTGAGCAATGAGCATAGTCAAATG
*
51103 TTGAGCAATGAGCATAATCAAATG
1 TTGAGCAATGAGCATAGTCAAATG
51127 ATGTTGGACC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.25
Consensus pattern (24 bp):
TTGAGCAATGAGCATAGTCAAATG
Found at i:51878 original size:26 final size:23
Alignment explanation
Indices: 51833--51915 Score: 76
Period size: 23 Copynumber: 3.3 Consensus size: 23
51823 TCATCTTCTG
*
51833 AATATGAAAAATATATTTATTTAAATTT
1 AATAT-AAAAATA-ACTTATTT-AA--T
51861 AATATAAAAATAACTTATTTAAT
1 AATATAAAAATAACTTATTTAAT
* * *
51884 ACTACAAAAATAACTTATTTTTAT
1 AATATAAAAATAACTTA-TTTAAT
51908 AATATAAA
1 AATATAAA
51916 GATATATATT
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
23 16 0.33
24 11 0.23
25 2 0.04
26 7 0.15
27 7 0.15
28 5 0.10
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.41
Consensus pattern (23 bp):
AATATAAAAATAACTTATTTAAT
Found at i:55796 original size:2 final size:2
Alignment explanation
Indices: 55789--55826 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
55779 TTTATTAATA
55789 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
55827 TAAGACCTGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:56475 original size:65 final size:65
Alignment explanation
Indices: 56369--56755 Score: 493
Period size: 65 Copynumber: 6.0 Consensus size: 65
56359 AGGGATAATG
* * *
56369 GTTTCAAGAGAAACTGTCTTAAGAGAGACAAAATTTGTTTCAAGGGAAATGATCTCAAAGATGAT
1 GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAGGGAAACGATCTCAAAGATGAT
* * **
56434 GTTTCAAGGGAAGCTGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAACGA-CTCAAAGATGAT
1 GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAGGGAAACGATCTCAAAGATGA-
56498 T
65 T
* * * *
56499 GTTTCAAGAGAAACTGTCTCAAGAGACAAAAAAATTCGTTTAAAGGGAAATGA-CTCAAAGATGA
1 GTTTCAAGAGAAACTGTCTCAAGAGA-GACAAAATTCGTTTCAAGGGAAACGATCTCAAAGATGA
56563 TT
65 -T
*
56565 GTTTCAAGAGAAACTG--T---GAGAGACAAAACTTTGTTTCAAGGGAAAC-AGTCTCAAAGATG
1 GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTCGTTTCAAGGGAAACGA-TCTCAAAGATG
56624 AT
64 AT
* * * *
56626 GTTTCTAGAAAAACTGTCTCAAGGGAGACAAAATTCATTTCAAGGGAAACGATCTCAAAGATGAT
1 GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAGGGAAACGATCTCAAAGATGAT
* * * *
56691 GTTTCGAGAGAAATTGTCTCAAGGGAGACAAAATTCGTTTTAAGGGAAACGATCTCAAAGATGAT
1 GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAGGGAAACGATCTCAAAGATGAT
56756 AAATTTTGTT
Statistics
Matches: 283, Mismatches: 28, Indels: 22
0.85 0.08 0.07
Matches are distributed among these distances:
60 6 0.02
61 33 0.12
62 11 0.04
63 1 0.00
64 12 0.04
65 160 0.57
66 60 0.21
ACGTcount: A:0.40, C:0.13, G:0.22, T:0.25
Consensus pattern (65 bp):
GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAGGGAAACGATCTCAAAGATGAT
Found at i:56504 original size:29 final size:29
Alignment explanation
Indices: 56471--56578 Score: 81
Period size: 29 Copynumber: 3.4 Consensus size: 29
56461 ACAAAATTTA
*
56471 TTTCAAGGGAAACGACTCAAAGATGATTG
1 TTTCAAGAGAAACGACTCAAAGATGATTG
* **
56500 TTTCAAGAGAAACTGTCTCAAGAGACAAAAAAATTCG
1 TTTCAAGAGAAAC-GACTCAA-AG-----ATGATT-G
* * *
56537 TTTAAAGGGAAATGACTCAAAGATGATTG
1 TTTCAAGAGAAACGACTCAAAGATGATTG
56566 TTTCAAGAGAAAC
1 TTTCAAGAGAAAC
56579 TGTGAGAGAC
Statistics
Matches: 58, Mismatches: 13, Indels: 16
0.67 0.15 0.18
Matches are distributed among these distances:
29 23 0.40
30 10 0.17
31 2 0.03
35 2 0.03
36 10 0.17
37 11 0.19
ACGTcount: A:0.43, C:0.13, G:0.20, T:0.24
Consensus pattern (29 bp):
TTTCAAGAGAAACGACTCAAAGATGATTG
Found at i:56750 original size:192 final size:191
Alignment explanation
Indices: 56391--56755 Score: 547
Period size: 192 Copynumber: 1.9 Consensus size: 191
56381 ACTGTCTTAA
* ** *
56391 GAGAGACAAAATTTGTTTCAAGGGAAATGATCTCAAAGATGATGTTTCAAGGGAAGCTGTCTCAA
1 GAGAGACAAAATTTGTTTCAAGGGAAAAGATCTCAAAGATGATGTTTCAAGAAAAACTGTCTCAA
*
56456 GAGAGACAAAATTTATTTCAAGGGAAACGACTCAAAGATGATTGTTTCAAGAGAAACTGTCTCAA
66 GAGAGACAAAATTCATTTCAAGGGAAACGACTCAAAGATGATTGTTTCAAGAGAAACTGTCTCAA
*
56521 GAGACAAAAAAATTCGTTTAAAGGGAAATGACTCAAAGATGATTGTTTCAAGAGAAACTGT
131 GAGACAAAAAAATTCGTTTAAAGGGAAACGACTCAAAGATGATTGTTTCAAGAGAAACTGT
*
56582 GAGAGACAAAACTTTGTTTCAAGGGAAACAG-TCTCAAAGATGATGTTTCTAGAAAAACTGTCTC
1 GAGAGACAAAA-TTTGTTTCAAGGGAAA-AGATCTCAAAGATGATGTTTCAAGAAAAACTGTCTC
* * *
56646 AAGGGAGACAAAATTCATTTCAAGGGAAACGATCTCAAAGATGA-TGTTTCGAGAGAAATTGTCT
64 AAGAGAGACAAAATTCATTTCAAGGGAAACGA-CTCAAAGATGATTGTTTCAAGAGAAACTGTCT
* * * *
56710 CAAGGGA-GACAAAATTCGTTTTAAGGGAAACGATCTCAAAGATGAT
128 CAAGAGACAAAAAAATTCGTTTAAAGGGAAACGA-CTCAAAGATGAT
56756 AAATTTTGTT
Statistics
Matches: 156, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
191 33 0.21
192 111 0.71
193 12 0.08
ACGTcount: A:0.40, C:0.13, G:0.22, T:0.25
Consensus pattern (191 bp):
GAGAGACAAAATTTGTTTCAAGGGAAAAGATCTCAAAGATGATGTTTCAAGAAAAACTGTCTCAA
GAGAGACAAAATTCATTTCAAGGGAAACGACTCAAAGATGATTGTTTCAAGAGAAACTGTCTCAA
GAGACAAAAAAATTCGTTTAAAGGGAAACGACTCAAAGATGATTGTTTCAAGAGAAACTGT
Found at i:58014 original size:183 final size:183
Alignment explanation
Indices: 57666--58014 Score: 594
Period size: 183 Copynumber: 1.9 Consensus size: 183
57656 ATTAAATTTT
*
57666 CCAAATCATTTAAAACCCAATTAATAATTTAAGATCCAATAACTTTTAAACTTAAATCAATATTA
1 CCAAACCATTTAAAACCCAATTAATAATTTAAGATCCAATAACTTTTAAACTTAAATCAATATTA
* * *
57731 ATTAATTAAAAAATTATATAAATTTTTTATTTTATAATTATATATTATTTAAATTATTTGTAAAC
66 ATTAATTAAAAAATTATATAAAATTTTTATTTTATAATTATATATTATTTAAATTAATTATAAAC
57796 TGTTTTTTAATTAAAAAATATTAAATATATTATATATAACATATGGGTTAAGC
131 TGTTTTTTAATTAAAAAATATTAAATATATTATATATAACATATGGGTTAAGC
*
57849 CCAAACCATTTAAAACCCAATTAATAATTTAAGATCTAATAACTTTTAAACTTAAATCAATATTA
1 CCAAACCATTTAAAACCCAATTAATAATTTAAGATCCAATAACTTTTAAACTTAAATCAATATTA
*
57914 ATTAATTAAAAAAATTATCTAAAATTTTTATTTTATAATTATATATTATTTAAATTAATTATAAA
66 ATTAATT-AAAAAATTATATAAAATTTTTATTTTATAATTATATATTATTTAAATTAATTATAAA
* *
57979 CT-TTTTTTGAATTAAAAAATATTTAAT-TTTTATATA
130 CTGTTTTTT-AATTAAAAAATATTAAATATATTATATA
58015 AATTAGAAAA
Statistics
Matches: 156, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
183 84 0.54
184 72 0.46
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.44
Consensus pattern (183 bp):
CCAAACCATTTAAAACCCAATTAATAATTTAAGATCCAATAACTTTTAAACTTAAATCAATATTA
ATTAATTAAAAAATTATATAAAATTTTTATTTTATAATTATATATTATTTAAATTAATTATAAAC
TGTTTTTTAATTAAAAAATATTAAATATATTATATATAACATATGGGTTAAGC
Found at i:58160 original size:15 final size:15
Alignment explanation
Indices: 58140--58168 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
58130 AAAAAAAGTT
58140 TGGTTAATTCGGTTA
1 TGGTTAATTCGGTTA
58155 TGGTTAATTCGGTT
1 TGGTTAATTCGGTT
58169 CGGTCGGCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.07, G:0.28, T:0.48
Consensus pattern (15 bp):
TGGTTAATTCGGTTA
Found at i:59150 original size:18 final size:18
Alignment explanation
Indices: 59127--59171 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
59117 GCTTCCCCCA
*
59127 TTTTTCTCTGTTTTCCCT
1 TTTTTCTCTGTTTTCCAT
59145 TTTTTCTAC-GTTTTCCAT
1 TTTTTCT-CTGTTTTCCAT
59163 TTTTTCTCT
1 TTTTTCTCT
59172 TTGTTGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 1 0.04
18 22 0.92
19 1 0.04
ACGTcount: A:0.04, C:0.24, G:0.04, T:0.67
Consensus pattern (18 bp):
TTTTTCTCTGTTTTCCAT
Found at i:62914 original size:2 final size:2
Alignment explanation
Indices: 62909--62942 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
62899 TTTTAATCTA
62909 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
62943 TTATGAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:63098 original size:85 final size:85
Alignment explanation
Indices: 62960--63125 Score: 262
Period size: 85 Copynumber: 2.0 Consensus size: 85
62950 ATAAAATCAC
*
62960 GACACACGAATGTGTGTCATTTTCATTTATAACGGGGGCTTCAATGACACGCAATCTAAGTCATA
1 GACACACAAATGTGTGTCATTTTCATTTATAACGGGGGCTTCAATGACACGCAATCTAAGTCATA
**
63025 AATGCGTGTCATAAATTTAT
66 AATGCGCATCATAAATTTAT
* * *
63045 GACACACAAATGTGTGTCATCTTT-ATTTATGACGGGGGCTTCAATGACGCGCAATGTAAGTCAT
1 GACACACAAATGTGTGTCAT-TTTCATTTATAACGGGGGCTTCAATGACACGCAATCTAAGTCAT
63109 AAATGCGCATCATAAAT
65 AAATGCGCATCATAAAT
63126 GTGTGTCATA
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
85 71 0.96
86 3 0.04
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (85 bp):
GACACACAAATGTGTGTCATTTTCATTTATAACGGGGGCTTCAATGACACGCAATCTAAGTCATA
AATGCGCATCATAAATTTAT
Found at i:63121 original size:13 final size:13
Alignment explanation
Indices: 63104--63164 Score: 77
Period size: 13 Copynumber: 4.7 Consensus size: 13
63094 CGCAATGTAA
63104 GTCATAAATGCGC
1 GTCATAAATGCGC
* * *
63117 ATCATAAATGTGT
1 GTCATAAATGCGC
*
63130 GTCATAAATGCGT
1 GTCATAAATGCGC
*
63143 GTCATAAATGTGC
1 GTCATAAATGCGC
63156 GTCATAAAT
1 GTCATAAAT
63165 TTATGGCGCA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 41 1.00
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (13 bp):
GTCATAAATGCGC
Found at i:63126 original size:26 final size:26
Alignment explanation
Indices: 63097--63164 Score: 91
Period size: 26 Copynumber: 2.6 Consensus size: 26
63087 AATGACGCGC
*
63097 AATGTAAGTCATAAATGCGCATCATA
1 AATGTGAGTCATAAATGCGCATCATA
* **
63123 AATGTGTGTCATAAATGCGTGTCATA
1 AATGTGAGTCATAAATGCGCATCATA
*
63149 AATGTGCGTCATAAAT
1 AATGTGAGTCATAAAT
63165 TTATGGCGCA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.31
Consensus pattern (26 bp):
AATGTGAGTCATAAATGCGCATCATA
Found at i:68399 original size:20 final size:20
Alignment explanation
Indices: 68362--68400 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
68352 AGATTGAGTG
* * *
68362 GATTTTGATGTTGTTTGCAT
1 GATTTTAATGATGATTGCAT
68382 GATTTTAATGATGATTGCA
1 GATTTTAATGATGATTGCA
68401 AGTTTAGGAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.05, G:0.23, T:0.49
Consensus pattern (20 bp):
GATTTTAATGATGATTGCAT
Found at i:68605 original size:23 final size:23
Alignment explanation
Indices: 68575--68637 Score: 110
Period size: 23 Copynumber: 2.8 Consensus size: 23
68565 TTCCCCTGTG
68575 GGGGGAATCGGTTTCCCTTCAAA
1 GGGGGAATCGGTTTCCCTTCAAA
*
68598 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTTTCCCTTCAAA
68621 GGGGGAATCGG-TTCCCT
1 GGGGGAATCGGTTTCCCT
68638 CATGGGGGGA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
22 5 0.13
23 33 0.87
ACGTcount: A:0.19, C:0.24, G:0.33, T:0.24
Consensus pattern (23 bp):
GGGGGAATCGGTTTCCCTTCAAA
Found at i:78084 original size:19 final size:18
Alignment explanation
Indices: 78041--78084 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
78031 CTTTTTTAAA
*
78041 TTTTTAGATAGTTTATTT
1 TTTTTAGATAGTTGATTT
*
78059 TAATTTAGATTAGTTGATTT
1 T-TTTTAGA-TAGTTGATTT
78079 TTTTTA
1 TTTTTA
78085 CTATCCAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
18 1 0.05
19 10 0.48
20 10 0.48
ACGTcount: A:0.25, C:0.00, G:0.11, T:0.64
Consensus pattern (18 bp):
TTTTTAGATAGTTGATTT
Found at i:78292 original size:15 final size:15
Alignment explanation
Indices: 78272--78318 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
78262 TCGACTATCA
78272 TTATTTTATTATTTT
1 TTATTTTATTATTTT
* *
78287 TTATTTTATTATATC
1 TTATTTTATTATTTT
*
78302 ATATTTT-TTATTTT
1 TTATTTTATTATTTT
78316 TTA
1 TTA
78319 ATAATTATGT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
14 7 0.27
15 19 0.73
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (15 bp):
TTATTTTATTATTTT
Found at i:78317 original size:8 final size:8
Alignment explanation
Indices: 78271--78315 Score: 51
Period size: 7 Copynumber: 6.0 Consensus size: 8
78261 TTCGACTATC
78271 ATTATTTT
1 ATTATTTT
78279 ATTATTTT
1 ATTATTTT
78287 -TTATTTT
1 ATTATTTT
* *
78294 ATTATATC
1 ATTATTTT
78302 A-TATTTT
1 ATTATTTT
78309 -TTATTTT
1 ATTATTTT
78316 TTAATAATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
7 17 0.55
8 14 0.45
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (8 bp):
ATTATTTT
Found at i:78331 original size:22 final size:23
Alignment explanation
Indices: 78279--78334 Score: 73
Period size: 22 Copynumber: 2.5 Consensus size: 23
78269 TCATTATTTT
*
78279 ATTATTTTTTATTTTATTATATC
1 ATTATTTTTTATTTTATTATATA
78302 A-TATTTTTTATTTT-TTA-ATA
1 ATTATTTTTTATTTTATTATATA
78322 ATTATGTTTTTAT
1 ATTAT-TTTTTAT
78335 GGCACATTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
20 3 0.10
21 6 0.20
22 20 0.67
23 1 0.03
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.70
Consensus pattern (23 bp):
ATTATTTTTTATTTTATTATATA
Found at i:78960 original size:14 final size:14
Alignment explanation
Indices: 78941--78971 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
78931 AATACCTACA
78941 AAAGGAATCATGTT
1 AAAGGAATCATGTT
*
78955 AAAGGAATCATTTT
1 AAAGGAATCATGTT
78969 AAA
1 AAA
78972 TCAAAATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.06, G:0.16, T:0.29
Consensus pattern (14 bp):
AAAGGAATCATGTT
Found at i:79972 original size:16 final size:15
Alignment explanation
Indices: 79947--79988 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 15
79937 TTTTAACCAG
79947 TGTT-CATATTCTTA
1 TGTTCCATATTCTTA
*
79961 CTTTTCCATATTCTTA
1 -TGTTCCATATTCTTA
79977 TGTTCC-TATTCT
1 TGTTCCATATTCT
79989 CTAATCAGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 6 0.25
15 8 0.33
16 10 0.42
ACGTcount: A:0.17, C:0.21, G:0.05, T:0.57
Consensus pattern (15 bp):
TGTTCCATATTCTTA
Found at i:81764 original size:31 final size:31
Alignment explanation
Indices: 81700--81764 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
81690 ATTTTTATAG
* *
81700 TTTAATTGTTTTTTATTTTCTTTCTTAATAA
1 TTTAATTATTTTTTATTTTCTTTCTCAATAA
81731 TTTAATTATCTTTTTATTTTACTTT-TCAA-AA
1 TTTAATTAT-TTTTTATTTT-CTTTCTCAATAA
81762 TTT
1 TTT
81765 TGATGTCAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
31 13 0.43
32 13 0.43
33 4 0.13
ACGTcount: A:0.25, C:0.08, G:0.02, T:0.66
Consensus pattern (31 bp):
TTTAATTATTTTTTATTTTCTTTCTCAATAA
Found at i:82956 original size:18 final size:18
Alignment explanation
Indices: 82926--82960 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
82916 AGATCCGAAT
82926 AAAACTTTAATTTAATAC
1 AAAACTTTAATTTAATAC
82944 AAAA-TTTATATTTAATA
1 AAAACTTTA-ATTTAATA
82961 TTTCATAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (18 bp):
AAAACTTTAATTTAATAC
Found at i:84033 original size:182 final size:182
Alignment explanation
Indices: 83726--84581 Score: 1231
Period size: 182 Copynumber: 4.7 Consensus size: 182
83716 TGGCGGTTTA
* * *
83726 TGTCGATACTTTATAA-AACTGTATCGATCCACATCAATATAACAGGTAAAAATATGACAAAATC
1 TGTCGATACTTTATAACAA-TGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACC
* * * * * *
83790 GGTCTCGAAAAGACAAATCCGGTA-A-AACGGTACC-GTATATATTGAAAGTGTTGATACTTTAA
65 GGTCTCTAAAGGACAAAACCGATATAGAGC-G-ACCAG-ATATATTGAAAGTGTCGATACTTTAA
83852 TATAAGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCCATAAAG
127 TATAAGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCCATAAAG
*
83908 TGTCGATACTTTATAACAATGTATCGATCCACAACGATATAACAGGTAAAAATATAACAAAACCG
1 TGTCGATACTTTATAACAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCG
83973 GTCTCTAAAGGACAAAACCGATATAGAGCGACCAGATATATTGAAAGTGTCGATACTTTAATATA
66 GTCTCTAAAGGACAAAACCGATATAGAGCGACCAGATATATTGAAAGTGTCGATACTTTAATATA
* *
84038 AGTATCGACACTTTGTGAATTTAAAAGAGAAACAGTTTTAGCGCCTATAAAG
131 AGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCCATAAAG
* * * *
84090 TGTCAATACTTTATAACAATGTATTGATCCACAATGATATAACAGATAAAAATATGACAAAACCG
1 TGTCGATACTTTATAACAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCG
* * * * *
84155 GTCTATAAAGGAAAAAACCGGTATAGAGCGACCAAATATATTTAAAGTGTCGATACTTTAATATA
66 GTCTCTAAAGGACAAAACCGATATAGAGCGACCAGATATATTGAAAGTGTCGATACTTTAATATA
*
84220 AGTATCGACACTTTGTGAATTTAAAAGAGAATCAGTTTTAGCGCCCATAAAG
131 AGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCCATAAAG
* * * *
84272 TGTCGATATTTTATAACAATGTATCGATCCAAAACGGTATAACAGGTAAAAATATGACAAAACTG
1 TGTCGATACTTTATAACAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCG
* * *
84337 GTCTCTAAAGGACAAAACCGATATAGAGCGGCCAAATATATTTAAAGTGTCGATACTTTAATATA
66 GTCTCTAAAGGACAAAACCGATATAGAGCGACCAGATATATTGAAAGTGTCGATACTTTAATATA
* **
84402 AGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGTGCCTGTAAAG
131 AGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCCATAAAG
* *
84454 TGTCGATACTTTATAATAATGTATCGGT-CAGCAACGATATAACAGGTAAAAATATGACAAAACC
1 TGTCGATACTTTATAACAATGTATCGATCCA-CAACGATATAACAGGTAAAAATATGACAAAACC
* * * * * * *
84518 GGTCTCGAAATGACAAAACC-AGTAAAGCGCTACCGGATATATAT-AAAGTATCGATACTTTAAT
65 GGTCTCTAAAGGACAAAACCGA-TATAGAGCGACCAGATATAT-TGAAAGTGTCGATACTTTAAT
84581 A
128 A
84582 AATACGCGTA
Statistics
Matches: 612, Mismatches: 55, Indels: 14
0.90 0.08 0.02
Matches are distributed among these distances:
181 3 0.00
182 601 0.98
183 6 0.01
184 2 0.00
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.27
Consensus pattern (182 bp):
TGTCGATACTTTATAACAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCG
GTCTCTAAAGGACAAAACCGATATAGAGCGACCAGATATATTGAAAGTGTCGATACTTTAATATA
AGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCCATAAAG
Found at i:89217 original size:13 final size:13
Alignment explanation
Indices: 89173--89219 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
89163 TTTTCTTTTG
*
89173 ATATTGAAAACTAA
1 ATATTTAAAA-TAA
89187 ATA-TTAAAATAA
1 ATATTTAAAATAA
*
89199 TTTATTTAAAATAA
1 -ATATTTAAAATAA
89213 ATATTTA
1 ATATTTA
89220 TTTATTATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
12 3 0.11
13 13 0.46
14 12 0.43
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (13 bp):
ATATTTAAAATAA
Found at i:90663 original size:3 final size:3
Alignment explanation
Indices: 90655--90722 Score: 127
Period size: 3 Copynumber: 22.7 Consensus size: 3
90645 AATATATATT
*
90655 TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
90703 TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TA
90723 TGGGTAAAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:91446 original size:228 final size:228
Alignment explanation
Indices: 91049--92344 Score: 2291
Period size: 228 Copynumber: 5.7 Consensus size: 228
91039 CAAAAAGTTG
* * *
91049 TCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCT-GAAAATGTTGATCCATCAA
1 TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGAAAA-GCTGCTCCATCAA
* * * * *
91113 TTGAT-GAATTCATGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
65 GTGATAGATTTGA-GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCA
* * *
91177 GATGACGAGTTCTTATCATTATGAACTCTACCTGGCAATGTTAATCCATCAAATGATGAATTTAA
129 GATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAA
91242 ACAAAAAGTTGAACAAGTTCTTCTCATTATGAACT
194 ACAAAAAGTTGAACAAGTTCTTCTCATTATGAACT
*
91277 TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGAAAAGCTGCTCCATTAAG
1 TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGAAAAGCTGCTCCATCAAG
*
91342 TGATAGATTTGAGCAAAAGGTTGAACACATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGA
66 TGATAGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGA
*
91407 TGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTGATTCATCAAATGATGAATTCAAAC
131 TGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAAC
91472 AAAAAGTTGAACAAGTTCTTCTCATTATGAACT
196 AAAAAGTTGAACAAGTTCTTCTCATTATGAACT
91505 TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGAAAAGCTGCTCCATCAAG
1 TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGAAAAGCTGCTCCATCAAG
*
91570 TGATAGATTTGAGAAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGA
66 TGATAGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGA
91635 TGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAAC
131 TGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAAC
*
91700 AAAAGGTTGAACAAGTTCTTCTCATTATGAACT
196 AAAAAGTTGAACAAGTTCTTCTCATTATGAACT
91733 TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGAAAAGCTGCTCCATCAAG
1 TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGAAAAGCTGCTCCATCAAG
91798 TGATAGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGA
66 TGATAGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGA
*
91863 TGAAGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAAC
131 TGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAAC
*
91928 AAAAGGTTGAACAAGTTCTTCTCATTATGAACT
196 AAAAAGTTGAACAAGTTCTTCTCATTATGAACT
91961 TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGAAAAGCTGCTCCATCAAG
1 TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGAAAAGCTGCTCCATCAAG
92026 TGATAGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGA
66 TGATAGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGA
92091 TGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAAC
131 TGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAAC
92156 AAAAAGTTGAACAAGTTCTTCTCATTATGAACT
196 AAAAAGTTGAACAAGTTCTTCTCATTATGAACT
*
92189 TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGAAAAGCTGATCCATCGAA
1 TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGAAAAGCTGCTCCATC-AA
** * * *
92254 -TGAT-GAATTCAAGCAAAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCA
65 GTGATAG-ATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCA
92317 GAT---GAGTTCTTCTCATTATGAACTCTAC
129 GATGACGAGTTCTTCTCATTATGAACTCTAC
92345 AGATGACCCT
Statistics
Matches: 1035, Mismatches: 29, Indels: 11
0.96 0.03 0.01
Matches are distributed among these distances:
225 25 0.02
227 1 0.00
228 997 0.96
229 12 0.01
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (228 bp):
TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGAAAAGCTGCTCCATCAAG
TGATAGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGA
TGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAAC
AAAAAGTTGAACAAGTTCTTCTCATTATGAACT
Found at i:93125 original size:22 final size:22
Alignment explanation
Indices: 93100--93220 Score: 188
Period size: 22 Copynumber: 5.5 Consensus size: 22
93090 AATAAAGCTT
*
93100 TCATCTTTGAAAAGAGAATCTG
1 TCATCTTTGAAAAGAGAATCTA
* *
93122 TCATCTTTAAAAAGAGAATTTA
1 TCATCTTTGAAAAGAGAATCTA
* *
93144 TCATCTTTGAAGAGAGAATATA
1 TCATCTTTGAAAAGAGAATCTA
93166 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
93188 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
93210 TCATCTTTGAA
1 TCATCTTTGAA
93221 GAATGTAGAT
Statistics
Matches: 89, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 89 1.00
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.34
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:94812 original size:37 final size:39
Alignment explanation
Indices: 94756--94856 Score: 118
Period size: 41 Copynumber: 2.6 Consensus size: 39
94746 TATTTCTGAT
* * *
94756 TGAAATGGGCCTTCAAGATGTCCCACA-GGGA-A-CTGTC
1 TGAAATGGGCTTTCGAGATG-CCCACATGGAACATCTGTC
*
94793 TGAACTGGGCTTTCGAGATGCCCACATGGAACATTTCTGTC
1 TGAAATGGGCTTTCGAGATGCCCACATGGAACA--TCTGTC
94834 TGAAATGGGCTTTCGAGATGCCC
1 TGAAATGGGCTTTCGAGATGCCC
94857 CAATATTTGC
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
36 6 0.11
37 20 0.37
38 1 0.02
41 27 0.50
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.26
Consensus pattern (39 bp):
TGAAATGGGCTTTCGAGATGCCCACATGGAACATCTGTC
Found at i:98001 original size:17 final size:17
Alignment explanation
Indices: 97959--97990 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
97949 CTTGATTCAA
97959 TTTTCCTTTTTCTTTTT
1 TTTTCCTTTTTCTTTTT
97976 TTTTCCTTTTT-TTTT
1 TTTTCCTTTTTCTTTT
97991 CTTCTTTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (17 bp):
TTTTCCTTTTTCTTTTT
Found at i:99978 original size:27 final size:27
Alignment explanation
Indices: 99948--100003 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
99938 GTAATTATGT
*
99948 AAAAATGAAAATGTAAATACAAACGTA
1 AAAAATGAAAATGCAAATACAAACGTA
* * *
99975 AAAAATGCAAATGCAAATTCAAATGTA
1 AAAAATGAAAATGCAAATACAAACGTA
100002 AA
1 AA
100004 TATGTGAATG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.61, C:0.09, G:0.11, T:0.20
Consensus pattern (27 bp):
AAAAATGAAAATGCAAATACAAACGTA
Found at i:101663 original size:30 final size:32
Alignment explanation
Indices: 101610--101668 Score: 77
Period size: 30 Copynumber: 1.9 Consensus size: 32
101600 TGCAAATAAA
*
101610 ATGAAATATTAATAAGAAAATATATAAATACT
1 ATGAAATATTAATAAGAAAATATAAAAATACT
* *
101642 ATGAAA-A-TAATAAGTATATATAAAAAT
1 ATGAAATATTAATAAGAAAATATAAAAAT
101669 TTTGAAAAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 17 0.71
31 1 0.04
32 6 0.25
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.31
Consensus pattern (32 bp):
ATGAAATATTAATAAGAAAATATAAAAATACT
Found at i:102372 original size:13 final size:13
Alignment explanation
Indices: 102328--102374 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
102318 CTTTTCTTTG
*
102328 ATATTGAAAACTAA
1 ATATTTAAAA-TAA
102342 ATA-TTAAAATAA
1 ATATTTAAAATAA
*
102354 TTTATTTAAAATAA
1 -ATATTTAAAATAA
102368 ATATTTA
1 ATATTTA
102375 TTTATTATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
12 3 0.11
13 13 0.46
14 12 0.43
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (13 bp):
ATATTTAAAATAA
Found at i:103760 original size:3 final size:3
Alignment explanation
Indices: 103752--103797 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
103742 AATATATATT
103752 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
103798 GGGTAAAAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:109211 original size:29 final size:29
Alignment explanation
Indices: 109168--109239 Score: 83
Period size: 28 Copynumber: 2.4 Consensus size: 29
109158 TAGATATATT
* * *
109168 TTTACTATTATTTTTTTTGTTTTCTTTATC
1 TTTACT-TTATTTTTTTTATTTCCTTTATA
109198 TTTACTTTA-TTTTTTTATTTCCTTTATA
1 TTTACTTTATTTTTTTTATTTCCTTTATA
*
109226 TTTATTTTTATTTT
1 TTTA-CTTTATTTT
109240 ACTCTTGTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
28 20 0.56
29 7 0.19
30 9 0.25
ACGTcount: A:0.15, C:0.08, G:0.01, T:0.75
Consensus pattern (29 bp):
TTTACTTTATTTTTTTTATTTCCTTTATA
Found at i:109258 original size:4 final size:4
Alignment explanation
Indices: 109249--109409 Score: 72
Period size: 4 Copynumber: 38.8 Consensus size: 4
109239 TACTCTTGTT
* *
109249 TTTA TTTA TTTA -TTA TATA TATTA -TTA -TTA TCTTC TTTA TTTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA T-TTA TTTA TTTA T-TTA TTTA -TTTA TTTA
109297 TTT- TTTA TCTATA TTT- TTTA TTT- TTTA TTCCT- TTTA TTT- TCTT-
1 TTTA TTTA T-T-TA TTTA TTTA TTTA TTTA TT--TA TTTA TTTA T-TTA
*
109340 TATA TTTA TGTTA TTTA TTTTA TTTA CTTT- TTTA TCTTTA CTTTA TCTTTA
1 TTTA TTTA T-TTA TTTA -TTTA TTTA -TTTA TTTA --TTTA -TTTA --TTTA
*
109391 TTTA TGTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTT
109410 TTATCTTTTT
Statistics
Matches: 127, Mismatches: 8, Indels: 44
0.71 0.04 0.25
Matches are distributed among these distances:
3 24 0.19
4 61 0.48
5 29 0.23
6 13 0.10
ACGTcount: A:0.21, C:0.06, G:0.01, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:109265 original size:40 final size:40
Alignment explanation
Indices: 109202--109320 Score: 118
Period size: 40 Copynumber: 2.9 Consensus size: 40
109192 TTTATCTTTA
* *
109202 CTTTATTTT-TTTATTTCCTTTATATTTATTTTTATTTTAC-T
1 CTTTATTTTATTTATTT--ATTATATATATTTTTATTTT-CTT
* *
109243 CTTGT-TTTTATTTATTTATTATATATATTATTATTATCTT
1 CTT-TATTTTATTTATTTATTATATATATTTTTATTTTCTT
* *
109283 CTTTATTTTATTTATTTTTTATCTATATTTTTTATTTT
1 CTTTATTTTATTTATTTATTATATATA-TTTTTATTTT
109321 TTATTCCTTT
Statistics
Matches: 65, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
39 2 0.03
40 40 0.62
41 15 0.23
42 8 0.12
ACGTcount: A:0.20, C:0.07, G:0.01, T:0.72
Consensus pattern (40 bp):
CTTTATTTTATTTATTTATTATATATATTTTTATTTTCTT
Found at i:109341 original size:9 final size:10
Alignment explanation
Indices: 109329--109476 Score: 74
Period size: 9 Copynumber: 15.7 Consensus size: 10
109319 TTTTATTCCT
109329 TTTATTT-TC
1 TTTATTTATC
109338 TTTATATTTAT-
1 -TT-TATTTATC
*
109349 GTTATTTAT-
1 TTTATTTATC
109358 TTTATTTA-C
1 TTTATTTATC
109367 TTT-TTTATC
1 TTTATTTATC
109376 TTTACTTTATC
1 TTTA-TTTATC
109387 TTTATTTA--
1 TTTATTTATC
*
109395 TGTATTTAT-
1 TTTATTTATC
*
109404 TTATTTTTATC
1 TT-TATTTATC
*
109415 TTT-TTTATA
1 TTTATTTATC
109424 TTT-TTTATC
1 TTTATTTATC
*
109433 -TCATTT-TC
1 TTTATTTATC
109441 TTTATTTCAT-
1 TTTATTT-ATC
* *
109451 TTGT-TTTTTT
1 TT-TATTTATC
109461 TTTATTT-TC
1 TTTATTTATC
109470 TTTATTT
1 TTTATTT
109477 TTATTACCTT
Statistics
Matches: 111, Mismatches: 11, Indels: 33
0.72 0.07 0.21
Matches are distributed among these distances:
8 14 0.13
9 53 0.48
10 24 0.22
11 19 0.17
12 1 0.01
ACGTcount: A:0.17, C:0.07, G:0.02, T:0.74
Consensus pattern (10 bp):
TTTATTTATC
Found at i:109361 original size:20 final size:20
Alignment explanation
Indices: 109205--109481 Score: 92
Period size: 20 Copynumber: 14.2 Consensus size: 20
109195 ATCTTTACTT
**
109205 TATTT-TTTTATTTCCTTTA
1 TATTTATTTTATTTATTTTA
109224 TATTTA--TT-TTTATTTTA
1 TATTTATTTTATTTATTTTA
*
109241 CTCTTGT-TTTTATTTATTTATTA
1 -TATT-TATTTTATTTA-TT-TTA
* *
109264 TATATATTATTA-TTA-TCT-
1 TATTTATT-TTATTTATTTTA
* *
109282 TCTTTATTTTATTTATTTTT
1 TATTTATTTTATTTATTTTA
* *
109302 TATCTATATTT-TTTATTTTT
1 TATTTAT-TTTATTTATTTTA
**
109322 TATTCCTTTTATTT-TCTTTA
1 TATTTATTTTATTTAT-TTTA
*
109342 TATTTATGTTATTTA-TTT-
1 TATTTATTTTATTTATTTTA
*
109360 TATTTACTTT-TTTATCTTTA
1 TATTTATTTTATTTAT-TTTA
*
109380 -CTTTATCTTTATTTATGTATT-
1 TATTTAT-TTTATTTAT-T-TTA
109401 TATTTATTTTTATCTT-TTTTA
1 TATTTA-TTTTAT-TTATTTTA
*
109422 TA-TT-TTTTATCTCA-TTT-
1 TATTTATTTTAT-TTATTTTA
* * * *
109439 TCTTTATTTCATTTGTTTTT
1 TATTTATTTTATTTATTTTA
* *
109459 TTTTTATTTTCTTTATTTT-
1 TATTTATTTTATTTATTTTA
109478 TATT
1 TATT
109482 ACCTTACTTT
Statistics
Matches: 192, Mismatches: 34, Indels: 64
0.66 0.12 0.22
Matches are distributed among these distances:
17 15 0.08
18 36 0.19
19 34 0.18
20 60 0.31
21 17 0.09
22 21 0.11
23 9 0.05
ACGTcount: A:0.18, C:0.07, G:0.01, T:0.73
Consensus pattern (20 bp):
TATTTATTTTATTTATTTTA
Found at i:109378 original size:38 final size:38
Alignment explanation
Indices: 109313--109417 Score: 90
Period size: 39 Copynumber: 2.7 Consensus size: 38
109303 ATCTATATTT
* * *
109313 TTTATTTTTTATTCCTTTTATTTTCTTTATATTTAT-GTTA
1 TTTATTTTAT-TTACTTTT-TTATCTTTA-ATTTATCGTTA
* *
109353 TTTATTTTATTTACTTTTTTATCTTTACTTTATCTTTA
1 TTTATTTTATTTACTTTTTTATCTTTAATTTATCGTTA
109391 TTTATGTATTTATTTA--TTTTTATCTTT
1 TTTA--T-TTTATTTACTTTTTTATCTTT
109418 TTTATATTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
37 5 0.09
38 15 0.27
39 18 0.32
40 10 0.18
41 8 0.14
ACGTcount: A:0.18, C:0.08, G:0.02, T:0.72
Consensus pattern (38 bp):
TTTATTTTATTTACTTTTTTATCTTTAATTTATCGTTA
Found at i:109407 original size:33 final size:35
Alignment explanation
Indices: 109353--109417 Score: 82
Period size: 33 Copynumber: 1.9 Consensus size: 35
109343 ATTTATGTTA
*
109353 TTTATTTTATTTACTTTTTTATCTTTA-CTTTATC
1 TTTATTTTATGTACTTTTTTATCTTTATCTTTATC
*
109387 TTTA-TTTATGTA-TTTATTTATTTTTATCTTT
1 TTTATTTTATGTACTTT-TTTATCTTTATCTTT
109418 TTTATATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 3 0.11
33 16 0.59
34 8 0.30
ACGTcount: A:0.18, C:0.08, G:0.02, T:0.72
Consensus pattern (35 bp):
TTTATTTTATGTACTTTTTTATCTTTATCTTTATC
Found at i:109431 original size:46 final size:46
Alignment explanation
Indices: 109329--109433 Score: 126
Period size: 47 Copynumber: 2.2 Consensus size: 46
109319 TTTTATTCCT
*
109329 TTTATTT-TCTTTATATTTATGTTATTTATTTTATTTACTTTTTTATC
1 TTTATTTATC-TT-TATTTATGTTATTTATTTTATTTACTTTTTTATA
*
109376 TTTACTTTATCTTTATTTATG-TATTTATTTATTTTTATCTTTTTTATA
1 TTTA-TTTATCTTTATTTATGTTATTTATTT-TATTTA-CTTTTTTATA
109424 TTT-TTTATCT
1 TTTATTTATCT
109434 CATTTTCTTT
Statistics
Matches: 52, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
46 16 0.31
47 17 0.33
48 17 0.33
49 2 0.04
ACGTcount: A:0.19, C:0.07, G:0.02, T:0.72
Consensus pattern (46 bp):
TTTATTTATCTTTATTTATGTTATTTATTTTATTTACTTTTTTATA
Found at i:109447 original size:46 final size:45
Alignment explanation
Indices: 109340--109474 Score: 118
Period size: 46 Copynumber: 3.0 Consensus size: 45
109330 TTATTTTCTT
* *
109340 TATATTTATGTTATTTATTTTATTTACTTTTTTATCTTTACTTTATC
1 TATATTTAT-TTATTTATTTTTTTTACTTTTTTATATTTA-TTTATC
* *
109387 TTTATTTATGTATTTATTTATTTTTATCTTTTTTATATTT-TTTATC
1 TATATTTATTTATTTATTT-TTTTTA-CTTTTTTATATTTATTTATC
* * *
109433 TCAT-TTTCTTTATTTCATTTGTTTT--TTTTTTAT-TTTCTTTAT
1 T-ATATTTATTTATTT-ATTTTTTTTACTTTTTTATATTTATTTAT
109475 TTTTATTACC
Statistics
Matches: 75, Mismatches: 8, Indels: 14
0.77 0.08 0.14
Matches are distributed among these distances:
42 3 0.04
43 13 0.17
46 29 0.39
47 18 0.24
48 12 0.16
ACGTcount: A:0.18, C:0.07, G:0.02, T:0.73
Consensus pattern (45 bp):
TATATTTATTTATTTATTTTTTTTACTTTTTTATATTTATTTATC
Found at i:109450 original size:14 final size:14
Alignment explanation
Indices: 109427--109476 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
109417 TTTTATATTT
*
109427 TTTATCTCATTTTC
1 TTTATTTCATTTTC
*
109441 TTTATTTCATTTGTT
1 TTTATTTCATTT-TC
* *
109456 TTTTTTTTATTTTC
1 TTTATTTCATTTTC
109470 TTTATTT
1 TTTATTT
109477 TTATTACCTT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
14 18 0.62
15 11 0.38
ACGTcount: A:0.12, C:0.10, G:0.02, T:0.76
Consensus pattern (14 bp):
TTTATTTCATTTTC
Found at i:109477 original size:9 final size:9
Alignment explanation
Indices: 109175--109393 Score: 55
Period size: 9 Copynumber: 23.7 Consensus size: 9
109165 ATTTTTACTA
*
109175 TTATTTTTT
1 TTATTTTCT
*
109184 TTGTTTTCT
1 TTATTTTCT
109193 TTATCTTTACT
1 TTAT-TTT-CT
109204 TTATTTT-T
1 TTATTTTCT
*
109212 TTATTTCCT
1 TTATTTTCT
*
109221 TTATATTTAT
1 TTAT-TTTCT
*
109231 TT-TTAT-T
1 TTATTTTCT
*
109238 TTACTCTTGTTT
1 TTA-T-TT-TCT
*
109250 TTA-TTTAT
1 TTATTTTCT
* *
109258 TTATTATAT
1 TTATTTTCT
* *
109267 ATATTATT-A
1 TTATT-TTCT
*
109276 TTATCTTCT
1 TTATTTTCT
*
109285 TTATTTTAT
1 TTATTTTCT
*
109294 TTATTTTTT
1 TTATTTTCT
109303 ATCTATATTT-T
1 -T-TAT-TTTCT
109314 TTA-TTT-T
1 TTATTTTCT
*
109321 TTA-TTCCTT
1 TTATTTTC-T
109330 TTATTTTCT
1 TTATTTTCT
*
109339 TTATATTTAT
1 TTAT-TTTCT
109349 GTTATTTAT-T
1 -TTATTT-TCT
*
109359 TTATTTACT
1 TTATTTTCT
109368 TT-TTTATCT
1 TTATTT-TCT
109377 TTACTTTATCT
1 TTA-TTT-TCT
109388 TTATTT
1 TTATTT
109394 ATGTATTTAT
Statistics
Matches: 161, Mismatches: 24, Indels: 49
0.69 0.10 0.21
Matches are distributed among these distances:
7 12 0.07
8 19 0.12
9 69 0.43
10 28 0.17
11 26 0.16
12 7 0.04
ACGTcount: A:0.18, C:0.08, G:0.01, T:0.73
Consensus pattern (9 bp):
TTATTTTCT
Found at i:115187 original size:65 final size:64
Alignment explanation
Indices: 115083--115316 Score: 302
Period size: 65 Copynumber: 3.7 Consensus size: 64
115073 TGCAACTTAC
*
115083 ACAAGATTGGATTTCAACTTCACAACGAAGAATATCCAACTCAAAGCCAATTCGGTGAAATTTAT
1 ACAAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAA-TCGGTGAAATTTAT
*
115148 ACAAGATTGGATTTCAACTTCACAACAAAGGATATCCAACTCAAAGCCAACTCGGTGAAATTTAT
1 ACAAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAA-TCGGTGAAATTTAT
** * * * *
115213 ACAAGATTACATTTCAACTTCACAATGAAGGATATCTAACTCAAAGCTAAAC-----AA--TAT
1 ACAAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATCGGTGAAATTTAT
* * *
115270 TCAAGATTGGATTTCAACTTCACAATGAAGGATATACAACTCAAAGC
1 ACAAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGC
115317 TCAACTTCAC
Statistics
Matches: 154, Mismatches: 15, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
57 45 0.29
59 2 0.01
64 1 0.01
65 106 0.69
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.26
Consensus pattern (64 bp):
ACAAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATCGGTGAAATTTAT
Found at i:115598 original size:85 final size:84
Alignment explanation
Indices: 115451--115740 Score: 303
Period size: 85 Copynumber: 3.4 Consensus size: 84
115441 CCAGTACAAC
* * *
115451 ATAACTCAAGGCGAGAATGGTTATCTGTCAGCAAAGACCTTTGAGTTCGATTACATTTAGCTCAA
1 ATAACTCAAGGAGAGAA-GGTTATCTGTCAACAAAGACCTTTGAGTTCGATTACATTCAGCTCAA
*
115516 AGGCATATCAAATTTACAGC
65 AGGCATATCAAATTTACAGA
* * * * * **
115536 GTAGCTCAAGGAGAGAAGAGCTATCTATCAACAAAGACCTTCGAGTTCGATTACGCTCAGCTCAA
1 ATAACTCAAGGAGAGAAG-GTTATCTGTCAACAAAGACCTTTGAGTTCGATTACATTCAGCTCAA
* *
115601 AGGCATACCAAACTTACAGA
65 AGGCATATCAAATTTACAGA
* *
115621 ATAACTCAA-GACGAGAAGGGTTATCTGTCAACAAATACCTTTGAGTTCGATTACATTCAACTCA
1 ATAACTCAAGGA-GAGAA-GGTTATCTGTCAACAAAGACCTTTGAGTTCGATTACATTCAGCTCA
* * * * *
115685 AGGGCATTTTAAATTTATAGC
64 AAGGCATATCAAATTTACAGA
* ** **
115706 ATAACTTAAGTCGAGAAAATCTATCTGTCAACAAA
1 ATAACTCAAGGAGAGAAGGT-TATCTGTCAACAAA
115741 CTATCGAGTT
Statistics
Matches: 166, Mismatches: 34, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
84 4 0.02
85 161 0.97
86 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.26
Consensus pattern (84 bp):
ATAACTCAAGGAGAGAAGGTTATCTGTCAACAAAGACCTTTGAGTTCGATTACATTCAGCTCAAA
GGCATATCAAATTTACAGA
Found at i:119816 original size:16 final size:16
Alignment explanation
Indices: 119795--119843 Score: 71
Period size: 16 Copynumber: 3.1 Consensus size: 16
119785 GTCAACTTTA
* *
119795 CCAACTTTTAATTTTG
1 CCAACTTTCAAATTTG
119811 CCAACTTTCAAATTTG
1 CCAACTTTCAAATTTG
*
119827 CCAACTTTCAACTTTG
1 CCAACTTTCAAATTTG
119843 C
1 C
119844 TAATTTTTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.27, C:0.27, G:0.06, T:0.41
Consensus pattern (16 bp):
CCAACTTTCAAATTTG
Found at i:131785 original size:9 final size:9
Alignment explanation
Indices: 131773--131833 Score: 56
Period size: 9 Copynumber: 7.1 Consensus size: 9
131763 TAATATTTTG
131773 TATTTAATT
1 TATTTAATT
131782 TATTTAATT
1 TATTTAATT
*
131791 TATTTAA-G
1 TATTTAATT
* *
131799 TATTTTACT
1 TATTTAATT
131808 TATTTAA--
1 TATTTAATT
* *
131815 TATTTTACT
1 TATTTAATT
131824 TATTTAATT
1 TATTTAATT
131833 T
1 T
131834 TTTTGCAGAT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
7 6 0.14
8 6 0.14
9 30 0.71
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (9 bp):
TATTTAATT
Found at i:131836 original size:16 final size:16
Alignment explanation
Indices: 131790--131835 Score: 76
Period size: 16 Copynumber: 2.9 Consensus size: 16
131780 TTTATTTAAT
131790 TTATTTAAGTATTTTAC
1 TTATTTAA-TATTTTAC
131807 TTATTTAATATTTTAC
1 TTATTTAATATTTTAC
131823 TTATTTAAT-TTTT
1 TTATTTAATATTTT
131836 TTGCAGATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.14
16 17 0.59
17 8 0.28
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.65
Consensus pattern (16 bp):
TTATTTAATATTTTAC
Found at i:133372 original size:27 final size:27
Alignment explanation
Indices: 133338--133424 Score: 113
Period size: 27 Copynumber: 3.2 Consensus size: 27
133328 GCCATATATA
133338 ATGCCGCCACCGCCTTTCCATTACCAG
1 ATGCCGCCACCGCCTTTCCATTACCAG
*
133365 ATGCCGCCATCGCCTTTCCATTACCAG
1 ATGCCGCCACCGCCTTTCCATTACCAG
* * * *
133392 ATGCCG-CAGCTGCCATTCCCTTACCTG
1 ATGCCGCCA-CCGCCTTTCCATTACCAG
133419 ATGCCG
1 ATGCCG
133425 ACGCTGCTAC
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
26 2 0.04
27 51 0.96
ACGTcount: A:0.17, C:0.41, G:0.17, T:0.24
Consensus pattern (27 bp):
ATGCCGCCACCGCCTTTCCATTACCAG
Found at i:136424 original size:20 final size:22
Alignment explanation
Indices: 136391--136431 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
136381 ATAGGAAATA
136391 TAAAAAATATTAATATTTTAGG
1 TAAAAAATATTAATATTTTAGG
*
136413 TAAAAAA-A-TAATGTTTTAG
1 TAAAAAATATTAATATTTTAG
136432 ATAATTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 1 0.06
22 7 0.39
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.39
Consensus pattern (22 bp):
TAAAAAATATTAATATTTTAGG
Found at i:137938 original size:9 final size:9
Alignment explanation
Indices: 137912--137946 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
137902 TGGATACAAC
137912 ATTATTAAAA
1 ATTA-TAAAA
137922 ATTA-AAAA
1 ATTATAAAA
137930 ATTATAAAA
1 ATTATAAAA
137939 ATTATAAA
1 ATTATAAA
137947 TACGTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 8 0.33
9 12 0.50
10 4 0.17
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (9 bp):
ATTATAAAA
Found at i:140966 original size:40 final size:41
Alignment explanation
Indices: 140922--141026 Score: 112
Period size: 40 Copynumber: 2.6 Consensus size: 41
140912 AGAAACATGT
*
140922 TAAAAAAATAATGAAAATAAATAAAGTAGG-GGAAATAAA-A
1 TAAAAAAATAATGAAAATAAATAAAG-AGGAGAAAATAAAGA
* *
140962 TAAAAAAATAA-GATAAAGAAAT-AAGAGGATAAAATAAAGA
1 TAAAAAAATAATGA-AAATAAATAAAGAGGAGAAAATAAAGA
*
141002 TAAAAAAGTAACT-AAAATAAATAAA
1 TAAAAAAATAA-TGAAAATAAATAAA
141027 ATAAAGACAA
Statistics
Matches: 54, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
38 3 0.06
39 12 0.22
40 36 0.67
41 3 0.06
ACGTcount: A:0.70, C:0.01, G:0.12, T:0.17
Consensus pattern (41 bp):
TAAAAAAATAATGAAAATAAATAAAGAGGAGAAAATAAAGA
Found at i:140972 original size:13 final size:13
Alignment explanation
Indices: 140954--141070 Score: 71
Period size: 13 Copynumber: 9.0 Consensus size: 13
140944 AAAGTAGGGG
140954 AAATAAAATAAAA
1 AAATAAAATAAAA
* *
140967 AAATAAGATAAAG
1 AAATAAAATAAAA
* ** *
140980 AAATAAGAGGATA
1 AAATAAAATAAAA
140993 AAATAAAGATAAAA
1 AAATAAA-ATAAAA
* *
141007 AAGT-AACTAAAA
1 AAATAAAATAAAA
141019 TAAATAAAATAAAGA
1 -AAATAAAATAAA-A
* *
141034 CAAA-GAAA-ACAA
1 -AAATAAAATAAAA
*
141046 AAAT-AAATAAAT
1 AAATAAAATAAAA
141058 AAATAAAATAAAA
1 AAATAAAATAAAA
141071 TGTCATTGTA
Statistics
Matches: 77, Mismatches: 20, Indels: 14
0.69 0.18 0.13
Matches are distributed among these distances:
11 6 0.08
12 12 0.16
13 40 0.52
14 15 0.19
15 4 0.05
ACGTcount: A:0.74, C:0.03, G:0.08, T:0.15
Consensus pattern (13 bp):
AAATAAAATAAAA
Found at i:140985 original size:21 final size:20
Alignment explanation
Indices: 140959--141065 Score: 60
Period size: 19 Copynumber: 5.4 Consensus size: 20
140949 AGGGGAAATA
140959 AAATAAAAAAATAAGATAAAG
1 AAATAAAAAAATAA-ATAAAG
* **
140980 AAATAAGAGGATAAAATAAAG
1 AAATAAAAAAAT-AAATAAAG
* * *
141001 --ATAAAAAAGTAACTAAAAT
1 AAATAAAAAAATAAAT-AAAG
* * *
141020 AAATAAAATAA-AGACAAAG
1 AAATAAAAAAATAAATAAAG
* *
141039 AAA-ACAAAAATAAATAAAT
1 AAATAAAAAAATAAATAAAG
141058 AAATAAAA
1 AAATAAAA
141066 TAAAATGTCA
Statistics
Matches: 59, Mismatches: 21, Indels: 13
0.63 0.23 0.14
Matches are distributed among these distances:
18 8 0.14
19 23 0.39
20 4 0.07
21 22 0.37
22 2 0.03
ACGTcount: A:0.74, C:0.03, G:0.08, T:0.15
Consensus pattern (20 bp):
AAATAAAAAAATAAATAAAG
Found at i:141128 original size:16 final size:16
Alignment explanation
Indices: 141087--141147 Score: 52
Period size: 16 Copynumber: 3.7 Consensus size: 16
141077 TGTAAAATAG
141087 ATAAAAATAAAATAAA
1 ATAAAAATAAAATAAA
*
141103 ATAAGGAAATAATAA-AAC
1 ATAA--AAATAA-AATAAA
*
141121 ATAAAAATAAAACAAA
1 ATAAAAATAAAATAAA
* *
141137 ACAAATATAAA
1 ATAAAAATAAA
141148 CCCAAAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
15 2 0.05
16 21 0.57
18 12 0.32
19 2 0.05
ACGTcount: A:0.75, C:0.05, G:0.03, T:0.16
Consensus pattern (16 bp):
ATAAAAATAAAATAAA
Found at i:141322 original size:2 final size:2
Alignment explanation
Indices: 141317--141343 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
141307 AAAAGATAAA
141317 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 A
141344 AACGTTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:143371 original size:60 final size:64
Alignment explanation
Indices: 143278--143443 Score: 241
Period size: 65 Copynumber: 2.6 Consensus size: 64
143268 GTGAAGTTGA
* * *
143278 GCTTTGAATTGGATATCCTTCGTTGTGAAGTTGAAATCCAAG-T-A-T-TGTTTTACCAAATTG
1 GCTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAAGCTGAGTAAGTTTCACCAAATTG
* *
143338 GCTTTGAGTTTGATATCCTTCGTCGTGAAGTTGAAATCCAAGCTTGAGTAAGTTTCACCAAATTG
1 GCTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAAGC-TGAGTAAGTTTCACCAAATTG
*
143403 GCTTTGAGTTGGATATCATTCGTTGTGAAGTTGAAATCCAA
1 GCTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAA
143444 TCTCAAGTCA
Statistics
Matches: 93, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
60 39 0.42
62 1 0.01
63 1 0.01
64 1 0.01
65 51 0.55
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (64 bp):
GCTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAAGCTGAGTAAGTTTCACCAAATTG
Found at i:144254 original size:17 final size:16
Alignment explanation
Indices: 144234--144265 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
144224 CTAAACGTTA
144234 TTTCTTTTTTCTTTTTT
1 TTTCTTTTTT-TTTTTT
144251 TTTCTTTTTTTTTTT
1 TTTCTTTTTTTTTTT
144266 GACTTAGGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (16 bp):
TTTCTTTTTTTTTTTT
Found at i:144264 original size:11 final size:10
Alignment explanation
Indices: 144238--144263 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
144228 ACGTTATTTC
144238 TTTTTTCTTT
1 TTTTTTCTTT
144248 TTTTTTCTTT
1 TTTTTTCTTT
144258 TTTTTT
1 TTTTTT
144264 TTGACTTAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:150987 original size:22 final size:21
Alignment explanation
Indices: 150940--150996 Score: 69
Period size: 22 Copynumber: 2.7 Consensus size: 21
150930 GGTTTCATAA
* * *
150940 GTCCTTCGGGATAACTTATAG
1 GTCCTTCGGGACAACTCACAG
150961 GTCCTTCGGGACATACTCACAG
1 GTCCTTCGGGACA-ACTCACAG
*
150983 GTCCTTTGGGACAA
1 GTCCTTCGGGACAA
150997 TTTCATATGC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 13 0.42
22 18 0.58
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.28
Consensus pattern (21 bp):
GTCCTTCGGGACAACTCACAG
Found at i:157160 original size:64 final size:65
Alignment explanation
Indices: 157048--157168 Score: 156
Period size: 64 Copynumber: 1.9 Consensus size: 65
157038 CCATTCAACA
* * * * *
157048 GGTATCGATACCCTCTCAAACAAAAGAATCACAGAATGTATTGAGGGTATCGATACCCCCAACTG
1 GGTACCGATACCCCCTCAAACAAAAGAATCACAAAATGCATTGAGGGTACCGATACCCCCAACTG
**
157113 GGTACCGATACCCCCTTGAACAAAA-AATCACAAAATGCCA-TGAGGGTACCGATACC
1 GGTACCGATACCCCCTCAAACAAAAGAATCACAAAATG-CATTGAGGGTACCGATACC
157169 TTAAGTAGGG
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
64 26 0.54
65 22 0.46
ACGTcount: A:0.36, C:0.26, G:0.18, T:0.19
Consensus pattern (65 bp):
GGTACCGATACCCCCTCAAACAAAAGAATCACAAAATGCATTGAGGGTACCGATACCCCCAACTG
Found at i:157755 original size:21 final size:21
Alignment explanation
Indices: 157729--157791 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
157719 GTCGAGGGTT
*
157729 TCATAGGTCCTTCGGGACAAC
1 TCATAGGTCTTTCGGGACAAC
157750 TCATAGGTCTTTCGGGACATAC
1 TCATAGGTCTTTCGGGACA-AC
* * *
157772 TAACAGGTCTTTCAGGACAA
1 TCATAGGTCTTTCGGGACAA
157792 TTTCATCTGC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
21 19 0.51
22 18 0.49
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (21 bp):
TCATAGGTCTTTCGGGACAAC
Found at i:157782 original size:22 final size:21
Alignment explanation
Indices: 157733--157791 Score: 73
Period size: 22 Copynumber: 2.8 Consensus size: 21
157723 AGGGTTTCAT
* * *
157733 AGGTCCTTCGGGACAACTCAT
1 AGGTCTTTCGGGACAACTAAC
157754 AGGTCTTTCGGGACATACTAAC
1 AGGTCTTTCGGGACA-ACTAAC
*
157776 AGGTCTTTCAGGACAA
1 AGGTCTTTCGGGACAA
157792 TTTCATCTGC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 15 0.45
22 18 0.55
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (21 bp):
AGGTCTTTCGGGACAACTAAC
Found at i:159176 original size:22 final size:22
Alignment explanation
Indices: 159148--159197 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
159138 TACCGTTCAG
*
159148 CTTCAAGTTCCCTTACTTTCTC
1 CTTCAAGTTCCCTTACTCTCTC
*
159170 CTTCAAGTTCCCTTACTCTCTG
1 CTTCAAGTTCCCTTACTCTCTC
159192 CTTCAA
1 CTTCAA
159198 TTCATTCTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.16, C:0.36, G:0.06, T:0.42
Consensus pattern (22 bp):
CTTCAAGTTCCCTTACTCTCTC
Found at i:160398 original size:19 final size:19
Alignment explanation
Indices: 160374--160425 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
160364 AGTTGACCTA
160374 GTGCATCGGTACACTTGGG
1 GTGCATCGGTACACTTGGG
160393 GTGCATCGGTACACTTGGG
1 GTGCATCGGTACACTTGGG
*
160412 TTGCATCGGTACAC
1 GTGCATCGGTACAC
160426 AATTTTACAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.17, C:0.23, G:0.33, T:0.27
Consensus pattern (19 bp):
GTGCATCGGTACACTTGGG
Found at i:162842 original size:13 final size:13
Alignment explanation
Indices: 162826--162858 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
162816 GAGCCGAGTT
*
162826 GAGCCATCGAGCC
1 GAGCCACCGAGCC
162839 GAGCCACCGAGCC
1 GAGCCACCGAGCC
162852 GAGCCAC
1 GAGCCAC
162859 TGAACCGAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.24, C:0.42, G:0.30, T:0.03
Consensus pattern (13 bp):
GAGCCACCGAGCC
Found at i:163143 original size:16 final size:17
Alignment explanation
Indices: 163111--163143 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
163101 TGACTTTGAC
163111 CAAAAAGTCAAATTTTT
1 CAAAAAGTCAAATTTTT
*
163128 CAAAAAGTCATATTTT
1 CAAAAAGTCAAATTTT
163144 ATGTTTTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.36
Consensus pattern (17 bp):
CAAAAAGTCAAATTTTT
Found at i:163196 original size:129 final size:128
Alignment explanation
Indices: 162963--163198 Score: 312
Period size: 129 Copynumber: 1.8 Consensus size: 128
162953 TTTGACCGAG
* * *
162963 TCAAACCGTTGACTTTGACAAAAAAGTCAAAATTTTCGAAAAGTCATATTTTATGTTTTTTGTCG
1 TCAAACCATTGACTTTGACAAAAAAGTCAAAATTTTCAAAAAGTCATATTTTATGTTTTTTGGCG
* * * * ** *
163028 TCTTGAATTCAATTCTACAGTATGTTTTTCCAAATTCGAACCCGAAAACCTCGAAATTGTCAA
66 TCCTGAATCCAATTCGACAGTACGTTTCGCCAAACTCGAACCCGAAAACCTCGAAATTGTCAA
* *
163091 TCAAACCAATTGACTTTGACCAAAAAGTCAAATTTTTCAAAAAGTCATATTTTATGTTTTTTGGC
1 TCAAACC-ATTGACTTTGACAAAAAAGTCAAAATTTTCAAAAAGTCATATTTTATGTTTTTTGGC
* * *
163156 GTCCTGAGTCCGATTTCGA-AGTCCGTTTCGCCAAACTCGAACC
65 GTCCTGAATCC-AATTCGACAGTACGTTTCGCCAAACTCGAACC
163199 TGGTAAGTTG
Statistics
Matches: 91, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
128 7 0.08
129 79 0.87
130 5 0.05
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.35
Consensus pattern (128 bp):
TCAAACCATTGACTTTGACAAAAAAGTCAAAATTTTCAAAAAGTCATATTTTATGTTTTTTGGCG
TCCTGAATCCAATTCGACAGTACGTTTCGCCAAACTCGAACCCGAAAACCTCGAAATTGTCAA
Found at i:165857 original size:89 final size:91
Alignment explanation
Indices: 165704--165881 Score: 279
Period size: 89 Copynumber: 2.0 Consensus size: 91
165694 AGACCTTACG
* * *
165704 GACCTAAGAATACCCTTGGGTAGGCCCATAGGCCCCAAGGCATATCCTTAGGTTGGTTCTCTTTT
1 GACCTAAGAATACCCTTGGGTAGGCCCATAGGCCCCAAGGAATATCCTTAGGTTGGCTCCCTTTT
* *
165769 -TTGTGTGCTTAGGGTAA-CCCTAAT
66 GCTATGTGCTTAGGGTAAGCCCTAAT
* *
165793 GACCTAAGGATACCCTTGGGTAGGCCCATAGGCCCCGAGGAATATCCTTAGGTTGGCTCCCTTTT
1 GACCTAAGAATACCCTTGGGTAGGCCCATAGGCCCCAAGGAATATCCTTAGGTTGGCTCCCTTTT
165858 GCTATGTGCTTAGGGTAAGCCCTA
66 GCTATGTGCTTAGGGTAAGCCCTA
165882 CAGATGCAGT
Statistics
Matches: 80, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
89 60 0.75
90 15 0.19
91 5 0.06
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (91 bp):
GACCTAAGAATACCCTTGGGTAGGCCCATAGGCCCCAAGGAATATCCTTAGGTTGGCTCCCTTTT
GCTATGTGCTTAGGGTAAGCCCTAAT
Found at i:167895 original size:13 final size:13
Alignment explanation
Indices: 167877--167915 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
167867 ACTCAACAGA
*
167877 GTCAACTTACTGG
1 GTCAACTCACTGG
*
167890 GTCAACTCATTGG
1 GTCAACTCACTGG
167903 GTCAACTCACTGG
1 GTCAACTCACTGG
167916 CTTTAACCGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (13 bp):
GTCAACTCACTGG
Found at i:167966 original size:30 final size:29
Alignment explanation
Indices: 167916--167975 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 29
167906 AACTCACTGG
* *
167916 CTTTAACCGAGTCAACCCGTTGACCGTTGA
1 CTTTAACCAAGTCAAACCGTTGACC-TTGA
*
167946 CTTTGACCAAGTCAAACCGTTGACCTTGA
1 CTTTAACCAAGTCAAACCGTTGACCTTGA
167975 C
1 C
167976 AAAAAATTCG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 5 0.19
30 22 0.81
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (29 bp):
CTTTAACCAAGTCAAACCGTTGACCTTGA
Found at i:172837 original size:45 final size:44
Alignment explanation
Indices: 172769--173004 Score: 355
Period size: 45 Copynumber: 5.2 Consensus size: 44
172759 GTTTTCATTA
* * *
172769 CATAAATTAAATGCATAACGGTGCATTAAAGACATGAAATGATG
1 CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATG
*
172813 CAATAAATGAAATGCATAAAGGTGCATTAAAGGCATGAAAGGATG
1 C-ATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATG
*
172858 TCATAAATAAAATGCATAACGGTGCATTAAAGGCATGAAAGGATG
1 -CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATG
*
172903 TCATAAATGAAATGCATAATGGTGCATTAAAGGCATGAAAGGATG
1 -CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATG
* *
172948 CCATAAATGAAATGCATAACTGTGCATTAAAGGCATGAAAGGATTC
1 -CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGA-TG
172994 CATAAATGAAA
1 CATAAATGAAA
173005 ATAATGAATT
Statistics
Matches: 177, Mismatches: 12, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
44 1 0.01
45 174 0.98
46 2 0.01
ACGTcount: A:0.45, C:0.11, G:0.21, T:0.23
Consensus pattern (44 bp):
CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATG
Found at i:180727 original size:12 final size:12
Alignment explanation
Indices: 180712--180781 Score: 61
Period size: 12 Copynumber: 5.8 Consensus size: 12
180702 GATACATTAC
180712 CTGAATTCTGTT
1 CTGAATTCTGTT
* *
180724 CTGATTTCTGAT
1 CTGAATTCTGTT
*
180736 CTGGATTCTGTT
1 CTGAATTCTGTT
* *
180748 ATG-ATATCTGAT
1 CTGAAT-TCTGTT
180760 CTGAATTCTGTT
1 CTGAATTCTGTT
* *
180772 TTGATTTCTG
1 CTGAATTCTG
180782 ATATCTCCGT
Statistics
Matches: 45, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
11 2 0.04
12 41 0.91
13 2 0.04
ACGTcount: A:0.17, C:0.14, G:0.19, T:0.50
Consensus pattern (12 bp):
CTGAATTCTGTT
Found at i:180731 original size:48 final size:48
Alignment explanation
Indices: 180675--180779 Score: 124
Period size: 48 Copynumber: 2.2 Consensus size: 48
180665 AAATATTTTA
* *
180675 TCTGATTTCCGA-CTTGAATTCTGTTCTGATA-CATTACCTGAATTCTGT
1 TCTGATTTCCGATC-TGAATTCTGTTATGATATC-TGACCTGAATTCTGT
* * *
180723 TCTGATTTCTGATCTGGATTCTGTTATGATATCTGATCTGAATTCTGT
1 TCTGATTTCCGATCTGAATTCTGTTATGATATCTGACCTGAATTCTGT
*
180771 TTTGATTTC
1 TCTGATTTC
180780 TGATATCTCC
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
48 47 0.96
49 2 0.04
ACGTcount: A:0.19, C:0.17, G:0.16, T:0.48
Consensus pattern (48 bp):
TCTGATTTCCGATCTGAATTCTGTTATGATATCTGACCTGAATTCTGT
Found at i:180743 original size:24 final size:24
Alignment explanation
Indices: 180712--180783 Score: 108
Period size: 24 Copynumber: 3.0 Consensus size: 24
180702 GATACATTAC
*
180712 CTGAATTCTGTTCTGATTTCTGAT
1 CTGAATTCTGTTATGATTTCTGAT
* *
180736 CTGGATTCTGTTATGATATCTGAT
1 CTGAATTCTGTTATGATTTCTGAT
*
180760 CTGAATTCTGTTTTGATTTCTGAT
1 CTGAATTCTGTTATGATTTCTGAT
180784 ATCTCCGTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.18, C:0.14, G:0.18, T:0.50
Consensus pattern (24 bp):
CTGAATTCTGTTATGATTTCTGAT
Done.