Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008926.1 Hibiscus syriacus cultivar Beakdansim tig00112231_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: 4069050
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 17 of 20
Found at i:3310510 original size:47 final size:47
Alignment explanation
Indices: 3310416--3310514 Score: 105
Period size: 47 Copynumber: 2.1 Consensus size: 47
3310406 ACCATTTTTA
* * ** * *
3310416 TCTTCTAAATTTTTATATCCTTTTCTCCTTCATTTCACTAGATTATT
1 TCTTCTAAATTTTCATATCATTTTCTCCTTCATTTCAAAAAAATATT
3310463 TCTTCTAAATTTATCATATCATTTTCT-CTATCATTT-AAAAAAATATT
1 TCTTCTAAATTT-TCATATCATTTTCTCCT-TCATTTCAAAAAAATATT
3310510 T-TTCT
1 TCTTCT
3310515 TCTATTCATT
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
46 4 0.09
47 22 0.50
48 18 0.41
ACGTcount: A:0.27, C:0.18, G:0.01, T:0.54
Consensus pattern (47 bp):
TCTTCTAAATTTTCATATCATTTTCTCCTTCATTTCAAAAAAATATT
Found at i:3313938 original size:177 final size:177
Alignment explanation
Indices: 3313642--3313996 Score: 710
Period size: 177 Copynumber: 2.0 Consensus size: 177
3313632 GGCAACATGA
3313642 TGATTGTCACTTCCTTGGACAATCGGATTGCCTTTGTGAATAAAATCAATAAAATCAAGTATCTC
1 TGATTGTCACTTCCTTGGACAATCGGATTGCCTTTGTGAATAAAATCAATAAAATCAAGTATCTC
3313707 AATGCAATGGTCAGCGAAATGGCCTCCTTCATTTCTATAGAAATAGCTTCTTCCTCCTGTTCATA
66 AATGCAATGGTCAGCGAAATGGCCTCCTTCATTTCTATAGAAATAGCTTCTTCCTCCTGTTCATA
3313772 CATTAAATAGCCCATCATCTTTCCAGTTTTTAAAGCAATCAAGTGTT
131 CATTAAATAGCCCATCATCTTTCCAGTTTTTAAAGCAATCAAGTGTT
3313819 TGATTGTCACTTCCTTGGACAATCGGATTGCCTTTGTGAATAAAATCAATAAAATCAAGTATCTC
1 TGATTGTCACTTCCTTGGACAATCGGATTGCCTTTGTGAATAAAATCAATAAAATCAAGTATCTC
3313884 AATGCAATGGTCAGCGAAATGGCCTCCTTCATTTCTATAGAAATAGCTTCTTCCTCCTGTTCATA
66 AATGCAATGGTCAGCGAAATGGCCTCCTTCATTTCTATAGAAATAGCTTCTTCCTCCTGTTCATA
3313949 CATTAAATAGCCCATCATCTTTCCAGTTTTTAAAGCAATCAAGTGTT
131 CATTAAATAGCCCATCATCTTTCCAGTTTTTAAAGCAATCAAGTGTT
3313996 T
1 T
3313997 TGATAAACTG
Statistics
Matches: 178, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
177 178 1.00
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.35
Consensus pattern (177 bp):
TGATTGTCACTTCCTTGGACAATCGGATTGCCTTTGTGAATAAAATCAATAAAATCAAGTATCTC
AATGCAATGGTCAGCGAAATGGCCTCCTTCATTTCTATAGAAATAGCTTCTTCCTCCTGTTCATA
CATTAAATAGCCCATCATCTTTCCAGTTTTTAAAGCAATCAAGTGTT
Found at i:3314296 original size:13 final size:13
Alignment explanation
Indices: 3314278--3314307 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
3314268 AGGTGCGAAC
*
3314278 TTAAGAATTTATA
1 TTAAGAATATATA
3314291 TTAAGAATATATA
1 TTAAGAATATATA
3314304 TTAA
1 TTAA
3314308 AAGGATGCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (13 bp):
TTAAGAATATATA
Found at i:3315452 original size:10 final size:10
Alignment explanation
Indices: 3315437--3315506 Score: 92
Period size: 10 Copynumber: 7.2 Consensus size: 10
3315427 AAGAAGAAAG
3315437 AGGAGAAGAA
1 AGGAGAAGAA
3315447 AGGAGAAGAA
1 AGGAGAAGAA
3315457 AGGAGAAGAA
1 AGGAGAAGAA
3315467 AGGAGAA-AA
1 AGGAGAAGAA
*
3315476 AAGAGGAAGAA
1 AGGA-GAAGAA
*
3315487 AGAAGAAG-A
1 AGGAGAAGAA
3315496 A-GAGAAGAA
1 AGGAGAAGAA
3315505 AG
1 AG
3315507 TTAAAGTCGG
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
8 5 0.10
9 9 0.17
10 34 0.65
11 4 0.08
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (10 bp):
AGGAGAAGAA
Found at i:3316195 original size:18 final size:19
Alignment explanation
Indices: 3316172--3316218 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
3316162 GCGATGGTGT
3316172 TATTATTATTT-A-ATAAAA
1 TATTATTATTTGAGA-AAAA
3316190 TATTATTATTTGAGAAAAA
1 TATTATTATTTGAGAAAAA
*
3316209 AATTATTATT
1 TATTATTATT
3316219 ACTAAATTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 11 0.42
19 14 0.54
20 1 0.04
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (19 bp):
TATTATTATTTGAGAAAAA
Found at i:3317280 original size:5 final size:5
Alignment explanation
Indices: 3317193--3317276 Score: 159
Period size: 5 Copynumber: 16.8 Consensus size: 5
3317183 ATATTTTATA
3317193 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
1 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
*
3317243 ATATG ATATG ATATG ATATG ATATG ATATA ATAT
1 ATATG ATATG ATATG ATATG ATATG ATATG ATAT
3317277 AATAATAATA
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
5 78 1.00
ACGTcount: A:0.42, C:0.00, G:0.18, T:0.40
Consensus pattern (5 bp):
ATATG
Found at i:3318911 original size:73 final size:73
Alignment explanation
Indices: 3318793--3318976 Score: 334
Period size: 73 Copynumber: 2.5 Consensus size: 73
3318783 TTTGGAGCGT
* *
3318793 GGGGGGAATCGGTACCCCTTA-GGGGGAATCGGTTCCCTAAGTGTAAAATTTAAATATTTCGACC
1 GGGGGGAATCGGTACCCCCTAGGGGGGAATCGGTTCCCTAAGTGTAAAATTCAAATATTTCGACC
3318857 GTTACACA
66 GTTACACA
*
3318865 GGGGGGAATCGGTACCCCCTAGGGGGGAATCGGTTCCCTAAGTGTAAAATTCAAATATTTCGATC
1 GGGGGGAATCGGTACCCCCTAGGGGGGAATCGGTTCCCTAAGTGTAAAATTCAAATATTTCGACC
3318930 GTTACACA
66 GTTACACA
3318938 GGGGGGAATCGGTACCCCCTAGGGGGGAATCGGTTCCCT
1 GGGGGGAATCGGTACCCCCTAGGGGGGAATCGGTTCCCT
3318977 CCGAGCATAC
Statistics
Matches: 108, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
72 20 0.19
73 88 0.81
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (73 bp):
GGGGGGAATCGGTACCCCCTAGGGGGGAATCGGTTCCCTAAGTGTAAAATTCAAATATTTCGACC
GTTACACA
Found at i:3323039 original size:15 final size:16
Alignment explanation
Indices: 3323019--3323055 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
3323009 AAAAATAATT
3323019 TAATAAAGTAA-ATAA
1 TAATAAAGTAATATAA
*
3323034 TAATAATGTAATATAA
1 TAATAAAGTAATATAA
3323050 T-ATAAA
1 TAATAAA
3323056 TACATGAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.32
Consensus pattern (16 bp):
TAATAAAGTAATATAA
Found at i:3323253 original size:2 final size:2
Alignment explanation
Indices: 3323242--3323307 Score: 104
Period size: 2 Copynumber: 35.0 Consensus size: 2
3323232 TAAATATAAT
3323242 TA TA -A TA TA TA TA TA TA TA TA TA TA TA -A TA TA TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3323281 TA TA TA TA TA TA -A TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3323308 ATAACTTTAA
Statistics
Matches: 60, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
1 4 0.07
2 56 0.93
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:3323310 original size:15 final size:15
Alignment explanation
Indices: 3323228--3323310 Score: 114
Period size: 15 Copynumber: 5.4 Consensus size: 15
3323218 TAGTACAATA
*
3323228 ATAATAAATATA-ATT
1 ATAATATATATATA-T
3323243 ATAATATATATATAT
1 ATAATATATATATAT
3323258 ATATATATATAATATAT
1 ATA-ATATAT-ATATAT
*
3323275 ATATTATATATATAT
1 ATAATATATATATAT
3323290 ATAATATATATATAT
1 ATAATATATATATAT
3323305 ATAATA
1 ATAATA
3323311 ACTTTAAAAA
Statistics
Matches: 62, Mismatches: 3, Indels: 6
0.87 0.04 0.08
Matches are distributed among these distances:
15 41 0.66
16 12 0.19
17 9 0.15
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATAATATATATATAT
Found at i:3323815 original size:36 final size:37
Alignment explanation
Indices: 3323769--3323844 Score: 120
Period size: 36 Copynumber: 2.1 Consensus size: 37
3323759 GTTTAAAACA
3323769 TAGCAAAATTCTATCCTA-TTTTTAGGAG-TTGAATCC
1 TAGCAAAATTCTATCCTATTTTTTA-GAGTTTGAATCC
*
3323805 TAGCAGAATTCTATCCTATTTTTTAGAGTTTGAATCC
1 TAGCAAAATTCTATCCTATTTTTTAGAGTTTGAATCC
3323842 TAG
1 TAG
3323845 TAGGACGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
36 20 0.54
37 17 0.46
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (37 bp):
TAGCAAAATTCTATCCTATTTTTTAGAGTTTGAATCC
Found at i:3324610 original size:106 final size:105
Alignment explanation
Indices: 3324299--3324819 Score: 502
Period size: 109 Copynumber: 4.9 Consensus size: 105
3324289 AATATTGTTC
* * *
3324299 CGAGTCCAATATCCTCCGCTGTGAAGTTGAAATTGGTTCTGGAACCGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTCCGCTGTGAAGTTGAAATTGGCTCT-GAAACGGAAAATTGTTTGTTGACA
** * ** * *
3324364 GTCAGCCGCCCCTTCCCTGTGAAGTTGAGCTTGTGCTGTCT
65 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * *
3324405 CGAGTCTAATATCCTTCGCTGTGAAGTTGAAATTGACTCTG-AAC--AAAA-T-TTTGTTGACAA
1 CGAGTCCAATATCCTCCGCTGTGAAGTTGAAATTGGCTCTGAAACGGAAAATTGTTTGTTGACAA
*
3324465 TCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
66 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* ** *
3324505 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTTGAAAAATGTTTGTTGACA
1 CGAGTCCAATATCCTCCGCTGTGAAGTTGAAATTGGCTCTGAAA-CGGAAAATTGTTTGTTGACA
**
3324570 ACCAGTTGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
65 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * ** * *
3324611 CGAGTGGCGCGATATCCTCCG-TCGTGGAGTTGAAA-TCGCGGATGAAACTGAAAAGTTGTTCGT
1 CGAGT--C-CAATATCCTCCGCT-GTGAAGTTGAAATTGGC-TCTGAAACGGAAAA-TTGTTTGT
*
3324674 TGACAACCAACCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
60 TGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
** * * * * * * *
3324720 CGGGTAGAACGATATCCTCCG-TCGTGGAGTTGAAATCGGTTCCGAAATTGGGAAATTG-TTGTT
1 C--G-AGTCCAATATCCTCCGCT-GTGAAGTTGAAATTGGCTCTGAAA-CGGAAAATTGTTTGTT
* * *
3324783 GGCAACCAGCCGTCCCTTTGTTGTGAAGTTTAACTTG
61 GACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTG
3324820 ACTCTAGCTA
Statistics
Matches: 352, Mismatches: 46, Indels: 32
0.82 0.11 0.07
Matches are distributed among these distances:
100 84 0.24
101 3 0.01
102 3 0.01
104 6 0.02
105 2 0.01
106 89 0.25
108 48 0.14
109 109 0.31
110 5 0.01
111 1 0.00
112 2 0.01
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (105 bp):
CGAGTCCAATATCCTCCGCTGTGAAGTTGAAATTGGCTCTGAAACGGAAAATTGTTTGTTGACAA
CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
Found at i:3325479 original size:67 final size:67
Alignment explanation
Indices: 3325399--3325557 Score: 223
Period size: 67 Copynumber: 2.4 Consensus size: 67
3325389 GAAACGAAAT
* **
3325399 TTTGTTTTAAGGGAGATA-AAT-TCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCATGGGAGAC
1 TTTGTTTCAAGGGA-A-ACAATCTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAAGGAGAC
3325462 AAAA
64 AAAA
* *
3325466 TTTGTTTCGAGGGAAACAATCTCAAAGGTTTTGTGTTTCAAGAGAAACTGTCTCAAAGGAGACAA
1 TTTGTTTCAAGGGAAACAATCTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAAGGAGACAA
3325531 AA
66 AA
**
3325533 TTTGTTTCAAGGGAAATTATCTCAA
1 TTTGTTTCAAGGGAAACAATCTCAA
3325558 GAGAGACGAA
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
65 1 0.01
66 4 0.05
67 77 0.94
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (67 bp):
TTTGTTTCAAGGGAAACAATCTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAAGGAGACAA
AA
Found at i:3325556 original size:36 final size:36
Alignment explanation
Indices: 3325499--3325585 Score: 104
Period size: 36 Copynumber: 2.4 Consensus size: 36
3325489 AAAGGTTTTG
* * *
3325499 TGTTTCAAGAGAAACTGTCTCAA-AGGAGACAAAATT
1 TGTTTCAAGGGAAATTATCTCAAGA-GAGACAAAATT
*
3325535 TGTTTCAAGGGAAATTATCTCAAGAGAGACGAAATT
1 TGTTTCAAGGGAAATTATCTCAAGAGAGACAAAATT
**
3325571 CATTTCAAGGGAAAT
1 TGTTTCAAGGGAAAT
3325586 GTTTTCAATG
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
36 43 0.98
37 1 0.02
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.26
Consensus pattern (36 bp):
TGTTTCAAGGGAAATTATCTCAAGAGAGACAAAATT
Found at i:3325658 original size:37 final size:37
Alignment explanation
Indices: 3325600--3326010 Score: 235
Period size: 37 Copynumber: 11.9 Consensus size: 37
3325590 TCAATGTTTA
* *
3325600 TGTTTC-AGGAGAAGCTGTCTCAAGGGAGACAAAATTT
1 TGTTTCAAGG-GAAACTGTCTCAAGAGAGACAAAATTT
*
3325637 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA-TT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
** * **
3325673 CATTTCAAGGGAAA-TGTTTC--------CAATGTTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
* *
3325701 ATGTTTCAAGAGAAACTGTCTCAATG-GAGACGAAATTT
1 -TGTTTCAAGGGAAACTGTCTCAA-GAGAGACAAAATTT
* *
3325739 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA-CT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
** * *
3325775 CATTTCAAGGGAAA-TGTTTTC-A-A-TG------TTT
1 TGTTTCAAGGGAAACTG-TCTCAAGAGAGACAAAATTT
* * *
3325803 ATGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTT
1 -TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
* *
3325841 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA-CT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
** * *
3325877 CATTTCAAGGGAAA-TGTTTTC-A-A-TG------TTT
1 TGTTTCAAGGGAAACTG-TCTCAAGAGAGACAAAATTT
* * * *
3325905 ATGTTTCAAGAGAAACAGTCTCAAGGGAGAAAAAATTT
1 -TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
* *
3325943 TGTTTCAATGGAAACTGTCTCAAGAGAGAC-AAAGTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
3325979 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
3326011 TGGTGAGCAC
Statistics
Matches: 277, Mismatches: 57, Indels: 80
0.67 0.14 0.19
Matches are distributed among these distances:
27 3 0.01
28 4 0.01
29 39 0.14
30 10 0.04
32 2 0.01
33 2 0.01
34 2 0.01
35 8 0.03
36 81 0.29
37 112 0.40
38 14 0.05
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.28
Consensus pattern (37 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
Found at i:3325672 original size:102 final size:102
Alignment explanation
Indices: 3325499--3325992 Score: 819
Period size: 102 Copynumber: 4.9 Consensus size: 102
3325489 AAAGGTTTTG
* *
3325499 TGTTTCAAGAGAAACTGTCTCAAAGGAGACAAAA-TTTGTTTCAAGGGAAATTATCTCAAGAGAG
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAG
*
3325563 ACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
66 ACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
* *
3325600 TGTTTCAGGAGAAGCTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAG
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAG
*
3325665 ACAAAATTCATTTCAAGGGAAATGTTTCCAATGTTTA
66 ACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
* *
3325702 TGTTTCAAGAGAAACTGTCTCAATGGAGACGAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAG
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAG
*
3325767 ACAAAACTCATTTCAAGGGAAATGTTTTCAATGTTTA
66 ACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
*
3325804 TGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAG
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAG
*
3325869 ACAAAACTCATTTCAAGGGAAATGTTTTCAATGTTTA
66 ACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
* * * *
3325906 TGTTTCAAGAGAAACAGTCTCAAGGGAGAAAAAATTTTGTTTCAATGGAAACTGTCTCAAGAGAG
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAG
* **
3325971 ACAAAGTTTGTTTCAAGGGAAA
66 ACAAAATTCATTTCAAGGGAAA
3325993 CTGTCTCAAG
Statistics
Matches: 370, Mismatches: 22, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
101 31 0.08
102 339 0.92
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (102 bp):
TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAG
ACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
Found at i:3325992 original size:36 final size:36
Alignment explanation
Indices: 3325906--3326010 Score: 147
Period size: 36 Copynumber: 2.9 Consensus size: 36
3325896 TCAATGTTTA
* * * * *
3325906 TGTTTCAAGAGAAACAGTCTCAAGGGAGAAAAAATTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAG-ACAAAGTT
*
3325943 TGTTTCAATGGAAACTGTCTCAAGAGAGACAAAGTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAGTT
3325979 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
3326011 TGGTGAGCAC
Statistics
Matches: 61, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
36 37 0.61
37 24 0.39
ACGTcount: A:0.39, C:0.13, G:0.23, T:0.25
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAGTT
Found at i:3327528 original size:16 final size:16
Alignment explanation
Indices: 3327509--3327564 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 16
3327499 TTTATTTTTG
3327509 TTTTGTTTTTTTTCCT
1 TTTTGTTTTTTTTCCT
* *
3327525 TTTTGCTTCTTTT-CT
1 TTTTGTTTTTTTTCCT
**
3327540 TTTT-TCTTTTTGCCCT
1 TTTTGT-TTTTTTTCCT
3327556 TTTTGTTTT
1 TTTTGTTTT
3327565 GATTGAATCA
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
15 10 0.32
16 20 0.65
17 1 0.03
ACGTcount: A:0.00, C:0.16, G:0.07, T:0.77
Consensus pattern (16 bp):
TTTTGTTTTTTTTCCT
Found at i:3327564 original size:22 final size:23
Alignment explanation
Indices: 3327516--3327558 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
3327506 TTGTTTTGTT
*
3327516 TTTTTTCCTTTTTGCTTCTTTTC
1 TTTTTTCCTTTTTGCCTCTTTTC
3327539 TTTTTT-CTTTTTGCC-CTTTT
1 TTTTTTCCTTTTTGCCTCTTTT
3327559 TGTTTTGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 8 0.42
23 6 0.32
ACGTcount: A:0.00, C:0.21, G:0.05, T:0.74
Consensus pattern (23 bp):
TTTTTTCCTTTTTGCCTCTTTTC
Found at i:3331053 original size:15 final size:15
Alignment explanation
Indices: 3331033--3331075 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 15
3331023 TTAATAGTAC
3331033 AATAATAATAAATAT
1 AATAATAATAAATAT
*
3331048 AATAATTATAAATAT
1 AATAATAATAAATAT
3331063 ATATATATAATAA
1 A-ATA-ATAATAA
3331076 CTTTAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 15 0.62
16 3 0.12
17 6 0.25
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
AATAATAATAAATAT
Found at i:3331587 original size:36 final size:37
Alignment explanation
Indices: 3331541--3331616 Score: 111
Period size: 36 Copynumber: 2.1 Consensus size: 37
3331531 GTTTAAAACA
*
3331541 TAGCAAAATTCTATCCTA-TTTTTAGGAG-TTGAATCC
1 TAGCAAAATTCTATCATATTTTTTA-GAGTTTGAATCC
*
3331577 TAGCAGAATTCTATCATATTTTTTAGAGTTTGAATCC
1 TAGCAAAATTCTATCATATTTTTTAGAGTTTGAATCC
3331614 TAG
1 TAG
3331617 TAGGACGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
36 19 0.53
37 17 0.47
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.41
Consensus pattern (37 bp):
TAGCAAAATTCTATCATATTTTTTAGAGTTTGAATCC
Found at i:3331600 original size:37 final size:36
Alignment explanation
Indices: 3331516--3331616 Score: 114
Period size: 37 Copynumber: 2.8 Consensus size: 36
3331506 GTGCTTGTGG
* * * *
3331516 ATCATATCTTTAGGAGTTTAAAACATAGCAAAATTCT
1 ATCATATTTTTA-GAGTTTGAATCCTAGCAAAATTCT
* *
3331553 ATCCTATTTTTAGGAG-TTGAATCCTAGCAGAATTCT
1 ATCATATTTTTA-GAGTTTGAATCCTAGCAAAATTCT
3331589 ATCATATTTTTTAGAGTTTGAATCCTAG
1 ATCATA-TTTTTAGAGTTTGAATCCTAG
3331617 TAGGACGAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
36 24 0.44
37 31 0.56
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.40
Consensus pattern (36 bp):
ATCATATTTTTAGAGTTTGAATCCTAGCAAAATTCT
Found at i:3336789 original size:73 final size:73
Alignment explanation
Indices: 3336682--3336865 Score: 271
Period size: 73 Copynumber: 2.5 Consensus size: 73
3336672 TTTGGAGCGT
* * * *
3336682 GGGGGGAATCGATACCCCTTAAGGGGAATTGGTTCCCTAAGTCTAAAATTCAAATATTTCGACCG
1 GGGGGGAATCGGTACCCCCTAGGGGGAATCGGTTCCCTAAGTCTAAAATTCAAATATTTCGACCG
3336747 TTACACA-
66 TTACACAG
* * * *
3336754 GGGGAGAATCGGTACCCCCTAGGAGGGAATCGGTTCCCTAAGTGTAAAATTTAAATATTTTGACC
1 GGGGGGAATCGGTACCCCCTAGG-GGGAATCGGTTCCCTAAGTCTAAAATTCAAATATTTCGACC
3336819 GTTACACAG
65 GTTACACAG
3336828 GGGGGGAATCGGTACCCCCTAGGGGGGAATCGGTTCCC
1 GGGGGGAATCGGTACCCCCTA-GGGGGAATCGGTTCCC
3336866 CCCGATCATA
Statistics
Matches: 100, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
72 19 0.19
73 45 0.45
74 34 0.34
75 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (73 bp):
GGGGGGAATCGGTACCCCCTAGGGGGAATCGGTTCCCTAAGTCTAAAATTCAAATATTTCGACCG
TTACACAG
Found at i:3336866 original size:20 final size:21
Alignment explanation
Indices: 3336828--3336867 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
3336818 CGTTACACAG
3336828 GGGGGGAATCGGTACCCCCTA
1 GGGGGGAATCGGTACCCCCTA
*
3336849 GGGGGGAATCGGTTCCCCC
1 GGGGGGAATCGGTACCCCC
3336868 CGATCATAGT
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:0.15, C:0.30, G:0.40, T:0.15
Consensus pattern (21 bp):
GGGGGGAATCGGTACCCCCTA
Found at i:3337360 original size:131 final size:131
Alignment explanation
Indices: 3337221--3337578 Score: 463
Period size: 131 Copynumber: 2.7 Consensus size: 131
3337211 AAAGAAAATG
* *
3337221 ATAATATCTAATTATTTTCAATC-AGGAATAAATGACCTCTCATTCTTTAAAGCAATAATTTATT
1 ATAATATCTAATTATTTTCAATCGA-GAATAAATGACCTCTCATGCTTTAAAGCAATCATTTATT
* * *
3337285 ACTTCAATCGAAATGAAGAGATATCACTATTTCATCTT-AAAATCCAATATTGATTCGAGAGAAA
65 ACTCCAATCGAAATGAAAAGATATCACTATTTCATCTTAAAAAT-CAAGATTGATTCGAGAGAAA
3337349 ACC
129 ACC
* *
3337352 ATAATATCTAATTATTTAT-GATCGAGAATAAATGACCTCTCGTGCTTTAAAG-AAGTCATTTAT
1 ATAATATCTAATTATTT-TCAATCGAGAATAAATGACCTCTCATGCTTTAAAGCAA-TCATTTAT
* * * * *
3337415 TACTCCAATCGAAATGAATAGATATCACTATTCCTTCTTAAAAATCAAGGTTGATTCGGGAGAAA
64 TACTCCAATCGAAATGAAAAGATATCACTATTTCATCTTAAAAATCAAGATTGATTCGAGAGAAA
*
3337480 ACG
129 ACC
* * * * *
3337483 TTAATATCTAATTATTTCCAATTGAGAATAAATAACCTCTCATGCCTTAAAGCAATCATTTATTA
1 ATAATATCTAATTATTTTCAATCGAGAATAAATGACCTCTCATGCTTTAAAGCAATCATTTATTA
* * *
3337548 CTCCTACCGAAATGAAAAGATATTACTATTT
66 CTCCAATCGAAATGAAAAGATATCACTATTT
3337579 TCAATATTGA
Statistics
Matches: 197, Mismatches: 24, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
130 2 0.01
131 186 0.94
132 9 0.05
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.34
Consensus pattern (131 bp):
ATAATATCTAATTATTTTCAATCGAGAATAAATGACCTCTCATGCTTTAAAGCAATCATTTATTA
CTCCAATCGAAATGAAAAGATATCACTATTTCATCTTAAAAATCAAGATTGATTCGAGAGAAAAC
C
Found at i:3339645 original size:3 final size:3
Alignment explanation
Indices: 3339637--3339686 Score: 93
Period size: 3 Copynumber: 17.0 Consensus size: 3
3339627 TAAAAATATC
3339637 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
3339684 AAT
1 AAT
3339687 GCCAAGATGA
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 44 0.96
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:3352236 original size:21 final size:21
Alignment explanation
Indices: 3352207--3352247 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
3352197 TCCAAGAGAG
3352207 ATGGAAGAGCA-AAGTGGTGGA
1 ATGGAAGAGCACAA-TGGTGGA
*
3352228 ATGGGAGAGCACAATGGTGG
1 ATGGAAGAGCACAATGGTGG
3352248 GCATATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.34, C:0.07, G:0.44, T:0.15
Consensus pattern (21 bp):
ATGGAAGAGCACAATGGTGGA
Found at i:3352876 original size:34 final size:33
Alignment explanation
Indices: 3352813--3352876 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
3352803 TTAATTTAAT
*
3352813 AATAAAATATATTTAATAAGTTAAGATACAAAA
1 AATAAAATATATTTAATAAGTTAAAATACAAAA
**
3352846 AATAAAATATATTTTTTAAAGTTAAAATACA
1 AATAAAATATATTTAAT-AAGTTAAAATACA
3352877 TAAATTATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
33 15 0.56
34 12 0.44
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (33 bp):
AATAAAATATATTTAATAAGTTAAAATACAAAA
Found at i:3353301 original size:20 final size:20
Alignment explanation
Indices: 3353278--3353366 Score: 66
Period size: 20 Copynumber: 4.7 Consensus size: 20
3353268 AAAATACATA
3353278 AATTATTATAAAATAAAGTT
1 AATTATTATAAAATAAAGTT
3353298 AATTA-T-T--AATAAAG-T
1 AATTATTATAAAATAAAGTT
* * *
3353313 -ATGA-TATAAAATATATACATA
1 AATTATTATAAAATA-A-A-GTT
*
3353334 AATTATTATAAAATCAAGTT
1 AATTATTATAAAATAAAGTT
3353354 AATTATTATAAAA
1 AATTATTATAAAA
3353367 AATTCAAATA
Statistics
Matches: 53, Mismatches: 7, Indels: 18
0.68 0.09 0.23
Matches are distributed among these distances:
14 4 0.08
15 2 0.04
16 7 0.13
17 4 0.08
18 2 0.04
19 2 0.04
20 19 0.36
21 1 0.02
22 4 0.08
23 8 0.15
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.38
Consensus pattern (20 bp):
AATTATTATAAAATAAAGTT
Found at i:3355177 original size:64 final size:63
Alignment explanation
Indices: 3355107--3355268 Score: 200
Period size: 64 Copynumber: 2.5 Consensus size: 63
3355097 CGGTGGACCA
* ** * * *
3355107 AGTGTGCATCGATGCATAAAATGCATTCGATGTTTAA-AAATAGCCTGAGTGTATCGGTGCATTG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTAATAAA-A-CCCAAGTGCATCGATGCATAG
** *
3355171 CTTGTGCATCGATGAATGAAATGCATTCGATGTTTTAATAAAACCCAAGTGCATCGATGCATAG
1 AGTGTGCATCGATGCATGAAATGCATTCGATG-TTTAATAAAACCCAAGTGCATCGATGCATAG
*
3355235 AGAGTGCATCGATGCATGAAATGCATTCGATGTT
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTT
3355269 CAATTTATTC
Statistics
Matches: 83, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
63 2 0.02
64 72 0.87
65 6 0.07
66 3 0.04
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.30
Consensus pattern (63 bp):
AGTGTGCATCGATGCATGAAATGCATTCGATGTTTAATAAAACCCAAGTGCATCGATGCATAG
Found at i:3363813 original size:64 final size:63
Alignment explanation
Indices: 3363745--3363923 Score: 207
Period size: 64 Copynumber: 2.8 Consensus size: 63
3363735 TGGAACACTT
* * * **
3363745 AGTGCATCGGTGCACCAAGTGTGCATCGATGCATAAAATGCATTCGATGTTTGAA-AATAGCCTG
1 AGTGCATCGGTGCACC-ACTGTGCATCGATGCATGAAATGCATTCGATGTTTGAATAA-AACCCA
*** *
3363809 AGTGCATCGGTGCATTGCTTGTGCATCGATGCATGAAATGCATTCGATGTTTTAATAAAACCCA
1 AGTGCATCGGTGCACCAC-TGTGCATCGATGCATGAAATGCATTCGATGTTTGAATAAAACCCA
* * *
3363873 AGTGCATCGATGCACTCTCTATGCATCGATGCATGAAATGCATTCGATGTT
1 AGTGCATCGGTGCAC-CACTGTGCATCGATGCATGAAATGCATTCGATGTT
3363924 CAATTTATTC
Statistics
Matches: 98, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
64 95 0.97
65 3 0.03
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.30
Consensus pattern (63 bp):
AGTGCATCGGTGCACCACTGTGCATCGATGCATGAAATGCATTCGATGTTTGAATAAAACCCA
Found at i:3367232 original size:8 final size:8
Alignment explanation
Indices: 3367219--3367243 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
3367209 AAAAAGGGTG
3367219 TTCGAATA
1 TTCGAATA
3367227 TTCGAATA
1 TTCGAATA
3367235 TTCGAATA
1 TTCGAATA
3367243 T
1 T
3367244 CAGACTAGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (8 bp):
TTCGAATA
Found at i:3367820 original size:31 final size:31
Alignment explanation
Indices: 3367753--3367826 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 31
3367743 TTAAAAATTA
* * * * *
3367753 CAATACAGTCCCTTAATATTTAGTCTGTTTT
1 CAATATAGTCCCTCAACATTTAGTCCGTTTG
* *
3367784 TAATATGGTCCCTCAACATTTAGTCCGTTTG
1 CAATATAGTCCCTCAACATTTAGTCCGTTTG
3367815 CAATATAGTCCC
1 CAATATAGTCCC
3367827 CGACGTAACT
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.26, C:0.23, G:0.12, T:0.39
Consensus pattern (31 bp):
CAATATAGTCCCTCAACATTTAGTCCGTTTG
Found at i:3369791 original size:31 final size:31
Alignment explanation
Indices: 3369717--3369784 Score: 118
Period size: 31 Copynumber: 2.2 Consensus size: 31
3369707 CAGGTACGTC
*
3369717 AGGGACCCTATTGCAAACGGACTAAATGTTG
1 AGGGACCATATTGCAAACGGACTAAATGTTG
3369748 AGGGACCATATTGCAAACGGACTAAATGTTG
1 AGGGACCATATTGCAAACGGACTAAATGTTG
*
3369779 GGGGAC
1 AGGGAC
3369785 TGTATTGTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (31 bp):
AGGGACCATATTGCAAACGGACTAAATGTTG
Found at i:3371500 original size:20 final size:20
Alignment explanation
Indices: 3371475--3371567 Score: 96
Period size: 21 Copynumber: 4.5 Consensus size: 20
3371465 TTTTCCCAAT
3371475 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
3371495 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGTAAA
3371515 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGTAAA
* ** *
3371536 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAA-TAAGTAAA
3371557 TCGCAATGCGA
1 TCGCAATGCGA
3371568 TAATAAAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:3371517 original size:41 final size:41
Alignment explanation
Indices: 3371472--3371585 Score: 185
Period size: 41 Copynumber: 2.8 Consensus size: 41
3371462 CGATTTTCCC
3371472 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
3371513 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
* *
3371554 AAATCGCAATGCGATAATAA-AAAATCGCAACG
1 AATTCGCAATGCG--AATAAGTAAATCGCAACG
3371586 AGATACTTAC
Statistics
Matches: 69, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
41 53 0.77
42 11 0.16
43 5 0.07
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.18
Consensus pattern (41 bp):
AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
Found at i:3371521 original size:21 final size:20
Alignment explanation
Indices: 3371475--3371567 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
3371465 TTTTCCCAAT
*
3371475 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGGAAA
* **
3371495 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGGAAA
*
3371515 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGGAAA
* **
3371536 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGG-AAA
3371557 TCGCAATGCGA
1 TCGCAATGCGA
3371568 TAATAAAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 29 0.50
21 29 0.50
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGGAAA
Found at i:3371626 original size:20 final size:20
Alignment explanation
Indices: 3371578--3371629 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
3371568 TAATAAAAAA
* *
3371578 TCGCAACGAGATACTTACTT
1 TCGCAACGCGATACTGACTT
3371598 TCGCAACGCGATACTGACTT
1 TCGCAACGCGATACTGACTT
3371618 TCGCAACGCGAT
1 TCGCAACGCGAT
3371630 TTACATAGCG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (20 bp):
TCGCAACGCGATACTGACTT
Found at i:3372195 original size:19 final size:19
Alignment explanation
Indices: 3372171--3372215 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
3372161 GGAACGAGAG
**
3372171 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAACCAA
3372190 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACCAA
3372209 AATCGCA
1 AATCGCA
3372216 TTGCGATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.47, C:0.27, G:0.18, T:0.09
Consensus pattern (19 bp):
AATCGCAACGCGAAACCAA
Found at i:3372305 original size:20 final size:20
Alignment explanation
Indices: 3372270--3372333 Score: 85
Period size: 20 Copynumber: 3.2 Consensus size: 20
3372260 TTCTCTCGTC
3372270 GCGATAGTCA-TTTCGCGTT
1 GCGATAGTCATTTTCGCGTT
3372289 GCGATAGTCATTTTCGCGTT
1 GCGATAGTCATTTTCGCGTT
** * *
3372309 GCGATTCTCATTATCTCGTT
1 GCGATAGTCATTTTCGCGTT
3372329 GCGAT
1 GCGAT
3372334 TTTCATTTCA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
19 10 0.25
20 30 0.75
ACGTcount: A:0.16, C:0.22, G:0.23, T:0.39
Consensus pattern (20 bp):
GCGATAGTCATTTTCGCGTT
Found at i:3372339 original size:20 final size:19
Alignment explanation
Indices: 3372211--3372342 Score: 121
Period size: 19 Copynumber: 7.1 Consensus size: 19
3372201 GAAACCAAAA
*
3372211 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
3372230 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
3372249 TTGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * **
3372263 TCTCGTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
**
3372282 TCGCGTTGCGATAGTCATTT
1 TCGCGTTGCGATTTTCA-TT
*
3372302 TCGCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATT
*
3372321 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
3372341 TC
1 TC
3372343 AACCAAAAGA
Statistics
Matches: 94, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
14 8 0.09
16 2 0.02
17 3 0.03
19 47 0.50
20 34 0.36
ACGTcount: A:0.13, C:0.23, G:0.20, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:3374425 original size:21 final size:21
Alignment explanation
Indices: 3374401--3374467 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
3374391 TCATTCCTCG
3374401 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
3374422 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
3374443 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
3374464 AGAG
1 AGAG
3374468 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:3374425 original size:42 final size:42
Alignment explanation
Indices: 3374345--3374467 Score: 106
Period size: 42 Copynumber: 2.9 Consensus size: 42
3374335 GCCCGACTCG
* * * * * * *
3374345 CCTATCATCCCTCAAGATTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
3374387 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
* * * * *
3374429 ACTGTCA-TCGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 CCTATCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
3374468 CCCGATTCAC
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 4 0.06
42 61 0.91
43 2 0.03
ACGTcount: A:0.23, C:0.37, G:0.17, T:0.24
Consensus pattern (42 bp):
CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
Found at i:3375843 original size:14 final size:14
Alignment explanation
Indices: 3375824--3375859 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
3375814 ATTGTTTAAT
3375824 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
3375838 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
3375852 TGATTTGT
1 TGATTTGT
3375860 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:3376064 original size:33 final size:33
Alignment explanation
Indices: 3376022--3376181 Score: 268
Period size: 33 Copynumber: 4.8 Consensus size: 33
3376012 ATTAAATTCG
*
3376022 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
* **
3376055 CGTTGCGATTTTCATTTCGCATTGCGAAAT-TAG
1 CGTTGCGATTTTCATTTCGCATTGCG-ATTCTCT
3376088 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
3376121 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
3376154 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
3376182 AGTAATTTCC
Statistics
Matches: 118, Mismatches: 7, Indels: 4
0.91 0.05 0.03
Matches are distributed among these distances:
32 2 0.02
33 114 0.97
34 2 0.02
ACGTcount: A:0.14, C:0.23, G:0.19, T:0.43
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:3376128 original size:14 final size:14
Alignment explanation
Indices: 3376109--3376163 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
3376099 TCATTTCGCA
3376109 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
3376123 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
3376140 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
3376156 TTGCGATT
1 TTGCGATT
3376164 TTCATTTCGC
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 14 0.41
16 7 0.21
17 7 0.21
19 6 0.18
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.45
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:3378491 original size:12 final size:12
Alignment explanation
Indices: 3378474--3378498 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3378464 TCTTCGGGGA
3378474 CTTTTTCTTCTT
1 CTTTTTCTTCTT
3378486 CTTTTTCTTCTT
1 CTTTTTCTTCTT
3378498 C
1 C
3378499 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:3378704 original size:24 final size:24
Alignment explanation
Indices: 3378670--3378723 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
3378660 CTGAAACATC
* *
3378670 ATCAAAATCCGTGTATTGACCAAT
1 ATCAAAATCCGGGTATTGACCAAG
*
3378694 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGGGTATTGACCAAG
3378718 ATCAAA
1 ATCAAA
3378724 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGGGTATTGACCAAG
Found at i:3379808 original size:20 final size:20
Alignment explanation
Indices: 3379783--3379840 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
3379773 ATTCATTTGA
*
3379783 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGAGAAAATGG
*
3379803 CTATCGCAACGTGAAAATGG
1 CTATCGCAACGAGAAAATGG
*
3379823 TTATCGCAACGAGAAAAT
1 CTATCGCAACGAGAAAAT
3379841 CGCAATGCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (20 bp):
CTATCGCAACGAGAAAATGG
Found at i:3379900 original size:19 final size:19
Alignment explanation
Indices: 3379859--3379983 Score: 215
Period size: 19 Copynumber: 6.8 Consensus size: 19
3379849 AAAATGAAAA
3379859 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
3379875 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
3379892 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
3379911 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
3379930 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
3379949 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
3379968 TCGCATTGCGATTTTC
1 TCGCATTGCGATTTTC
3379984 TCGTTGCGAT
Statistics
Matches: 104, Mismatches: 0, Indels: 7
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.11
16 3 0.03
17 3 0.03
19 87 0.84
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:3379950 original size:57 final size:52
Alignment explanation
Indices: 3379859--3380012 Score: 227
Period size: 57 Copynumber: 2.9 Consensus size: 52
3379849 AAAATGAAAA
3379859 TCGCATTGCGATTTTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
3379911 TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTC---TCG--TTGCGATTTTCATTTCGCATTGCGATTTTCATT
*** *
3379968 TCGCATTGCGATTTTCTCGTTGCGATAGCCATTTCGCGTTGCGAT
1 TCGCATTGCGATTTTCTCGTTGCGATTTTCATTTCGCATTGCGAT
3380013 AGTCTGTTTT
Statistics
Matches: 93, Mismatches: 4, Indels: 10
0.87 0.04 0.09
Matches are distributed among these distances:
52 38 0.41
54 3 0.03
55 3 0.03
57 49 0.53
ACGTcount: A:0.14, C:0.22, G:0.19, T:0.45
Consensus pattern (52 bp):
TCGCATTGCGATTTTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
Found at i:3380119 original size:14 final size:15
Alignment explanation
Indices: 3380100--3380137 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
3380090 CATCAATTAA
3380100 ACAAATCAAT-ATTT
1 ACAAATCAATCATTT
*
3380114 ACAAATC-ATCTTTT
1 ACAAATCAATCATTT
3380128 ACAAATCAAT
1 ACAAATCAAT
3380138 TAAACAATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 2 0.10
14 17 0.81
15 2 0.10
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.34
Consensus pattern (15 bp):
ACAAATCAATCATTT
Found at i:3382035 original size:20 final size:19
Alignment explanation
Indices: 3382000--3382055 Score: 85
Period size: 20 Copynumber: 2.9 Consensus size: 19
3381990 GAAACTTAAA
3382000 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
*
3382019 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
*
3382039 ATCGCAATGCGAAATGA
1 ATCGCAACGCGAAATGA
3382056 AAATCACAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 16 0.48
20 17 0.52
ACGTcount: A:0.36, C:0.23, G:0.25, T:0.16
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:3382074 original size:14 final size:14
Alignment explanation
Indices: 3382055--3382112 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
3382045 ATGCGAAATG
*
3382055 AAAATCACAACGAC
1 AAAATCGCAACGAC
*
3382069 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
3382085 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
3382101 AAAATCGCAACG
1 AAAATCGCAACG
3382113 CGAAACACAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 20 0.54
16 8 0.22
18 9 0.24
ACGTcount: A:0.50, C:0.26, G:0.16, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:3382098 original size:32 final size:33
Alignment explanation
Indices: 3382039--3382117 Score: 133
Period size: 32 Copynumber: 2.4 Consensus size: 33
3382029 GGAAATGGCT
*
3382039 ATCGCAATGCGAAATGAAAATCACAACGACAAA
1 ATCGCAACGCGAAATGAAAATCACAACGACAAA
*
3382072 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCACAACGACAAA
3382104 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
3382118 CACAAATCGC
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
32 29 0.66
33 15 0.34
ACGTcount: A:0.48, C:0.24, G:0.18, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCACAACGACAAA
Found at i:3382146 original size:19 final size:17
Alignment explanation
Indices: 3382124--3382219 Score: 78
Period size: 19 Copynumber: 5.6 Consensus size: 17
3382114 GAAACACAAA
3382124 TCGCATTGCGATTTTCATT
1 TCGC-TTGCGA-TTTCATT
*
3382143 TCGCGTTGCGATTT--TG
1 TCGC-TTGCGATTTCATT
3382159 TCG-TTGCGATTTCATT
1 TCGCTTGCGATTTCATT
*
3382175 TCGCGTTGCGATTT--TG
1 TCGC-TTGCGATTTCATT
3382191 TCG-TTGCGATTTTCATT
1 TCGCTTGCGA-TTTCATT
3382208 TCGCATTGCGAT
1 TCGC-TTGCGAT
3382220 AGCCATTTCC
Statistics
Matches: 63, Mismatches: 5, Indels: 19
0.72 0.06 0.22
Matches are distributed among these distances:
14 15 0.24
15 3 0.05
16 12 0.19
17 4 0.06
18 13 0.21
19 16 0.25
ACGTcount: A:0.11, C:0.20, G:0.23, T:0.46
Consensus pattern (17 bp):
TCGCTTGCGATTTCATT
Found at i:3382165 original size:14 final size:14
Alignment explanation
Indices: 3382146--3382203 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
3382136 TTTCATTTCG
3382146 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
3382160 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
3382176 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
3382192 CGTTGCGATTTT
1 CGTTGCGATTTT
3382204 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 23 0.61
16 4 0.11
18 11 0.29
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:3382210 original size:33 final size:33
Alignment explanation
Indices: 3382129--3382219 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
3382119 ACAAATCGCA
3382129 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
3382162 TTGCGA-TTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
*
3382194 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCGTTGCGAT
3382220 AGCCATTTCC
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 32 0.57
33 24 0.43
ACGTcount: A:0.11, C:0.19, G:0.23, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
Found at i:3382238 original size:20 final size:19
Alignment explanation
Indices: 3382204--3382258 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
3382194 TTGCGATTTT
*
3382204 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
3382223 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
3382243 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
3382259 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:3382757 original size:18 final size:18
Alignment explanation
Indices: 3382731--3382775 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
3382721 GTCGATCAGA
*
3382731 TGATGGCTCTAGGTGAGG
1 TGATGGCTCTAGGCGAGG
* *
3382749 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTAGGCGAGG
3382767 TGATGGCTC
1 TGATGGCTC
3382776 CCGAAGTGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.16, G:0.42, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTAGGCGAGG
Found at i:3384120 original size:20 final size:20
Alignment explanation
Indices: 3384095--3384132 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
3384085 AATAGTTTCT
3384095 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
**
3384115 GAAAATGACTATCGCAAC
1 GAAAATGAAAATCGCAAC
3384133 GAGAGAATCG
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:0.50, C:0.21, G:0.16, T:0.13
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:3384420 original size:22 final size:22
Alignment explanation
Indices: 3384395--3384438 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
3384385 GATTTAGATA
3384395 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
3384417 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
3384439 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:3384651 original size:20 final size:20
Alignment explanation
Indices: 3384626--3384719 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
3384616 GATTATGTAT
3384626 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
3384646 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
* *** * *
3384666 TATCTCGTTGCGATTTTTTAT
1 TATCGCGTTGCGA-AAGTCAG
* *
3384687 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
3384707 TATCGCATTGCGA
1 TATCGCGTTGCGA
3384720 TTTTCCCAAT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.78
21 13 0.22
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:3384720 original size:20 final size:20
Alignment explanation
Indices: 3384606--3384720 Score: 88
Period size: 20 Copynumber: 5.7 Consensus size: 20
3384596 CGCTTTGAAA
*
3384606 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* *
3384627 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * *
3384647 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTCAGT
* * ** * *
3384667 ATCTCGTTGCGATTTTTTATT
1 ATCGCATTGCGA-TAGTCAGT
3384688 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
3384708 ATCGCATTGCGAT
1 ATCGCATTGCGAT
3384721 TTTCCCAATT
Statistics
Matches: 76, Mismatches: 16, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
19 2 0.03
20 50 0.66
21 24 0.32
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.36
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:3384739 original size:41 final size:41
Alignment explanation
Indices: 3384648--3384782 Score: 130
Period size: 41 Copynumber: 3.3 Consensus size: 41
3384638 AAAGTCAGTA
* * * ** *
3384648 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-TTATT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* *
3384688 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* ** *
3384730 TCGCGTTGCGAT-TTACTTATTCGCATTGCGAATTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAAT
3384771 TCGCGTTGCGAT
1 TCGCGTTGCGAT
3384783 TTACTTATTC
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
40 3 0.04
41 73 0.94
42 2 0.03
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
Found at i:3384753 original size:20 final size:20
Alignment explanation
Indices: 3384709--3384801 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
3384699 ATAGTCAGTA
* **
3384709 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACTTAT
*
3384730 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
* **
3384750 TCGCATTGCGAATTTCCCAAT
1 TCGCATTGCG-ATTTACTTAT
*
3384771 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
3384791 TCGCATTGCGA
1 TCGCATTGCGA
3384802 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.39
Consensus pattern (20 bp):
TCGCATTGCGATTTACTTAT
Found at i:3384783 original size:41 final size:41
Alignment explanation
Indices: 3384709--3384804 Score: 183
Period size: 41 Copynumber: 2.3 Consensus size: 41
3384699 ATAGTCAGTA
*
3384709 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
3384750 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
3384791 TCGCATTGCGAATT
1 TCGCATTGCGAATT
3384805 GGGAAAATCG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:3387792 original size:35 final size:35
Alignment explanation
Indices: 3387753--3387819 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
3387743 TCAAGTTGAA
*
3387753 ACAAAAAGATGAATCAA-AATACAGAATAAGATTTT
1 ACAAAAAGAT-AAACAAGAATACAGAATAAGATTTT
* *
3387788 ACAAAAATATAAACAAGAATATAGAATAAGAT
1 ACAAAAAGATAAACAAGAATACAGAATAAGAT
3387820 AAATGATGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 5 0.18
35 23 0.82
ACGTcount: A:0.61, C:0.07, G:0.10, T:0.21
Consensus pattern (35 bp):
ACAAAAAGATAAACAAGAATACAGAATAAGATTTT
Found at i:3391361 original size:12 final size:12
Alignment explanation
Indices: 3391336--3391441 Score: 71
Period size: 12 Copynumber: 9.3 Consensus size: 12
3391326 TAATAAAAAT
* *
3391336 ATAATAATAGTA
1 ATAATTATAATA
3391348 ATAATTATAATA
1 ATAATTATAATA
3391360 ATAA-T-T-ATA
1 ATAATTATAATA
*
3391369 ACAATTATAATA
1 ATAATTATAATA
3391381 ATAA-T-T-ATA
1 ATAATTATAATA
*
3391390 ACAATTATAATA
1 ATAATTATAATA
* *
3391402 ATAACTATAACA
1 ATAATTATAATA
* *
3391414 ATTATAATAATA
1 ATAATTATAATA
* * *
3391426 AAAATAATAAAA
1 ATAATTATAATA
3391438 ATAA
1 ATAA
3391442 AACGGGCAAA
Statistics
Matches: 72, Mismatches: 16, Indels: 12
0.72 0.16 0.12
Matches are distributed among these distances:
9 12 0.17
10 4 0.06
11 4 0.06
12 52 0.72
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.34
Consensus pattern (12 bp):
ATAATTATAATA
Found at i:3391369 original size:9 final size:9
Alignment explanation
Indices: 3391335--3391424 Score: 56
Period size: 9 Copynumber: 9.0 Consensus size: 9
3391325 TTAATAAAAA
3391335 TATAATAA-
1 TATAATAAT
3391343 TAGTAATAATT
1 TA-TAATAA-T
3391354 ATAATAATAAT
1 -T-ATAATAAT
*
3391365 TATAACAATT
1 TATAATAA-T
3391375 ATAATAATAAT
1 -T-ATAATAAT
*
3391386 TATAACAAT
1 TATAATAAT
3391395 TATAATAAT
1 TATAATAAT
*
3391404 AACTATAACAAT
1 ---TATAATAAT
3391416 TATAATAAT
1 TATAATAAT
3391425 AAAAATAATA
Statistics
Matches: 65, Mismatches: 6, Indels: 21
0.71 0.07 0.23
Matches are distributed among these distances:
8 2 0.03
9 35 0.54
10 3 0.05
11 3 0.05
12 21 0.32
13 1 0.02
ACGTcount: A:0.57, C:0.04, G:0.01, T:0.38
Consensus pattern (9 bp):
TATAATAAT
Found at i:3391441 original size:21 final size:21
Alignment explanation
Indices: 3391336--3391426 Score: 148
Period size: 21 Copynumber: 4.3 Consensus size: 21
3391326 TAATAAAAAT
*
3391336 ATAATAA-TAGTAATAATTATA
1 ATAATAATTA-TAACAATTATA
3391357 ATAATAATTATAACAATTATA
1 ATAATAATTATAACAATTATA
3391378 ATAATAATTATAACAATTATA
1 ATAATAATTATAACAATTATA
*
3391399 ATAATAACTATAACAATTATA
1 ATAATAATTATAACAATTATA
3391420 ATAATAA
1 ATAATAA
3391427 AAATAATAAA
Statistics
Matches: 67, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
21 65 0.97
22 2 0.03
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.36
Consensus pattern (21 bp):
ATAATAATTATAACAATTATA
Found at i:3391737 original size:39 final size:39
Alignment explanation
Indices: 3391687--3391763 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
3391677 TGAACAAATT
* *
3391687 CTTCTCTTTCTTCATATGAGTTCTTCTCATTATGAACTC
1 CTTCTCATTCTTCAGATGAGTTCTTCTCATTATGAACTC
3391726 CTTCTCATTCTTCAGATGAGTTCTTCTCATTATGAACT
1 CTTCTCATTCTTCAGATGAGTTCTTCTCATTATGAACT
3391764 TCCTCTGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.19, C:0.25, G:0.09, T:0.47
Consensus pattern (39 bp):
CTTCTCATTCTTCAGATGAGTTCTTCTCATTATGAACTC
Found at i:3391754 original size:22 final size:22
Alignment explanation
Indices: 3391685--3391756 Score: 64
Period size: 22 Copynumber: 3.5 Consensus size: 22
3391675 GTTGAACAAA
* *
3391685 TTCTTCTCTTTCTTCATATGAG
1 TTCTTCTCATTCTTCAGATGAG
* *
3391707 TTCTTCTCATT-AT--GA--AC
1 TTCTTCTCATTCTTCAGATGAG
*
3391724 TCCTTCTCATTCTTCAGATGAG
1 TTCTTCTCATTCTTCAGATGAG
3391746 TTCTTCTCATT
1 TTCTTCTCATT
3391757 ATGAACTTCC
Statistics
Matches: 37, Mismatches: 8, Indels: 10
0.67 0.15 0.18
Matches are distributed among these distances:
17 11 0.30
18 1 0.03
19 1 0.03
20 2 0.05
21 1 0.03
22 21 0.57
ACGTcount: A:0.17, C:0.25, G:0.08, T:0.50
Consensus pattern (22 bp):
TTCTTCTCATTCTTCAGATGAG
Found at i:3392063 original size:124 final size:124
Alignment explanation
Indices: 3391833--3392406 Score: 850
Period size: 124 Copynumber: 4.7 Consensus size: 124
3391823 GAATCAAGCT
* * *
3391833 AAGGTCGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATAAGTTCTTCTCATTA
1 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
* * * *
3391897 TGAACTTTATCTGGAAATGTTGGTGCTGATCTATCTCTTTCTGTGATAGAGTCATGCAA
66 TGAACTTTCTCTGGAAAAGTTGATGCTGATCTATCTCCTTCTGTGATAGAGTCATGCAA
*
3391956 AATGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
3392021 TGAACTTTCTCTGGAAAAGTTGATGCTGATCTATCTCCTTCTGTGATAGAGTCATGCAA
66 TGAACTTTCTCTGGAAAAGTTGATGCTGATCTATCTCCTTCTGTGATAGAGTCATGCAA
3392080 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
*
3392145 TGAACTTTCTCTGGAAAAATTGATGCTGATCTATCTCCTTCTGTGATAGAGTCATGCAA
66 TGAACTTTCTCTGGAAAAGTTGATGCTGATCTATCTCCTTCTGTGATAGAGTCATGCAA
*
3392204 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTTTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
* *** * **
3392269 TGAACTTTCTCTGG-AAA--TG-T-C-GATCCA--T-C--GAATGAT-GAATTCAAACAA
66 TGAACTTTCTCTGGAAAAGTTGATGCTGATCTATCTCCTTCTGTGATAG-AGTCATGCAA
** *
3392317 AAGGTTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTTAGATGAGTTCTTCTCATT
1 AAGG-TTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
3392382 ATGAACTTTTTCTGGAAAAGTTGAT
65 ATGAACTTTCTCTGGAAAAGTTGAT
3392407 CCATCGAATA
Statistics
Matches: 421, Mismatches: 23, Indels: 19
0.91 0.05 0.04
Matches are distributed among these distances:
112 1 0.00
113 15 0.04
114 70 0.17
115 4 0.01
116 1 0.00
117 2 0.00
118 6 0.01
119 1 0.00
120 1 0.00
121 2 0.00
123 40 0.10
124 278 0.66
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.40
Consensus pattern (124 bp):
AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
TGAACTTTCTCTGGAAAAGTTGATGCTGATCTATCTCCTTCTGTGATAGAGTCATGCAA
Found at i:3392346 original size:114 final size:114
Alignment explanation
Indices: 3392201--3392502 Score: 482
Period size: 114 Copynumber: 2.7 Consensus size: 114
3392191 TAGAGTCATG
**
3392201 CAAAAGG-TTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTTTTCAGATGAGTTCTTCTC
1 CAAAAGGTTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTTTTCAGATGAGTTCTTCTC
* *
3392265 ATTATGAACTTTCTCTGGAAATGTCGATCCATCGAATGATGAATTCAAA
66 ATTATGAACTTTCTCTGGAAAAGTCGATCCATCGAATAATGAATTCAAA
3392314 CAAAAGGTTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTT-AGATGAGTTCTTCT
1 CAAAAGGTTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTT-TTTCAGATGAGTTCTTCT
* *
3392378 CATTATGAACTTTTTCTGGAAAAGTTGATCCATCGAATAATGAATTCAAA
65 CATTATGAACTTTCTCTGGAAAAGTCGATCCATCGAATAATGAATTCAAA
* * * * *
3392428 CAAAAGGTTTGAATAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAAATGAGTTCTTTTC
1 CAAAAGGTTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTTTTCAGATGAGTTCTTCTC
3392493 ATTATGAACT
66 ATTATGAACT
3392503 CTACCTGGCA
Statistics
Matches: 175, Mismatches: 11, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
113 9 0.05
114 163 0.93
115 3 0.02
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (114 bp):
CAAAAGGTTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTTTTCAGATGAGTTCTTCTC
ATTATGAACTTTCTCTGGAAAAGTCGATCCATCGAATAATGAATTCAAA
Found at i:3394382 original size:75 final size:75
Alignment explanation
Indices: 3394254--3394427 Score: 269
Period size: 75 Copynumber: 2.3 Consensus size: 75
3394244 ATGACGATGT
* *
3394254 GGGCCTTCAGCATGCCCCAACATTAGCTAATACAAACGTTCAAAATGTGTCAACATTCTTGATTC
1 GGGCTTTCAGCATGCCCCAACATTAGCTAATACAAACGTTCAAAATGTGTCAACATTCCTGA-TC
*
3394319 -TGATTGAAAG
65 ATGAATGAAAG
*
3394329 GGGCTTTCAGCATGCCCCAGCATTAGCTAATACAAACGTTCAAAATGTGTCAACATTCCTGATCA
1 GGGCTTTCAGCATGCCCCAACATTAGCTAATACAAACGTTCAAAATGTGTCAACATTCCTGATCA
*
3394394 TGAATGAAAT
66 TGAATGAAAG
* *
3394404 GGGCTTTCAGCATGCTCCATCATT
1 GGGCTTTCAGCATGCCCCAACATT
3394428 TGTTTCTTGT
Statistics
Matches: 91, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
74 2 0.02
75 89 0.98
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (75 bp):
GGGCTTTCAGCATGCCCCAACATTAGCTAATACAAACGTTCAAAATGTGTCAACATTCCTGATCA
TGAATGAAAG
Found at i:3404087 original size:3 final size:3
Alignment explanation
Indices: 3404079--3404168 Score: 74
Period size: 3 Copynumber: 30.0 Consensus size: 3
3404069 CTGTAATATG
* * * * *
3404079 TAA TAA TAA TATT TAT TAA TAA AAA T-A TAA TAA TAG TAA TAA TTA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
3404124 TAA TAA TAA TTA TAA CAA TTA TAA TAA TAA AAA TAA TAA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
3404169 AACGGGCAAA
Statistics
Matches: 67, Mismatches: 18, Indels: 4
0.75 0.20 0.04
Matches are distributed among these distances:
2 2 0.03
3 63 0.94
4 2 0.03
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:3404119 original size:30 final size:30
Alignment explanation
Indices: 3404079--3404168 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
3404069 CTGTAATATG
*
3404079 TAATAATAATATTTATTAATAA-AAATATAA
1 TAATAATAATAATTA-TAATAATAAATATAA
* *
3404109 TAATAGTAATAATTATAATAATAATTATAA
1 TAATAATAATAATTATAATAATAAATATAA
* * * * *
3404139 CAATTATAATAATAAAAATAATAAAAATAA
1 TAATAATAATAATTATAATAATAAATATAA
3404169 AACGGGCAAA
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
29 6 0.12
30 43 0.88
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (30 bp):
TAATAATAATAATTATAATAATAAATATAA
Found at i:3406862 original size:16 final size:16
Alignment explanation
Indices: 3406843--3406873 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
3406833 TTTTAAAACA
3406843 ATTTTAAAGAAAAATC
1 ATTTTAAAGAAAAATC
3406859 ATTTTAAAGAAAAAT
1 ATTTTAAAGAAAAAT
3406874 GGTCTGCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.32
Consensus pattern (16 bp):
ATTTTAAAGAAAAATC
Found at i:3409306 original size:91 final size:93
Alignment explanation
Indices: 3409149--3409317 Score: 270
Period size: 91 Copynumber: 1.8 Consensus size: 93
3409139 TGTTGAAGAC
*
3409149 GACACTGCTCATCCGCGATGAAGAGAATCTTGGCCATCTTTAGGAAAGATGATAACATGGTTCCA
1 GACACTGCTCATCCGCGATGAAGAGAATCTTGGCCATCTTTAGGAAAGATGATAACACGGTTCCA
*
3409214 CTCTGCTGGGGACATCTGGCCGGGGGAT
66 CTCTGCTGCGGACATCTGGCCGGGGGAT
* * * *
3409242 GACACTTCTCATCCGCGATGAAGAG-TTC-TGGCCATCTTTAGGAATGATGCTAACACGGTTCCA
1 GACACTGCTCATCCGCGATGAAGAGAATCTTGGCCATCTTTAGGAAAGATGATAACACGGTTCCA
3409305 CTCTGCTGCGGAC
66 CTCTGCTGCGGAC
3409318 GGCTGGTTAT
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
91 44 0.63
92 2 0.03
93 24 0.34
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.25
Consensus pattern (93 bp):
GACACTGCTCATCCGCGATGAAGAGAATCTTGGCCATCTTTAGGAAAGATGATAACACGGTTCCA
CTCTGCTGCGGACATCTGGCCGGGGGAT
Found at i:3409469 original size:130 final size:128
Alignment explanation
Indices: 3409227--3409712 Score: 652
Period size: 130 Copynumber: 3.7 Consensus size: 128
3409217 TGCTGGGGAC
* * * * *
3409227 ATCTGGCCGGGGGATGACACT-TCTCATCCGCGATGAAGAGTTCTGGCCATCTTTAGGAATGATG
1 ATCTGGTC-GGGGATGACA-TGGCTCATACGTGATGAAGAGTTCTGGCCATC--TA--AA-GGTG
* * * * *
3409291 CTAACACGGTTCC-ACTCTGCTGCGGACGGCTGGTTATCTGAGGTTGACACGGCTCATACGTGAT
59 ATAACACGGTTCCTAC-GTGATGAGGACGGCTGGTTATCTAAGGTTGACACGGCTCATACGTGAT
3409355 GAAGAG
123 GAAGAG
* ** *
3409361 TTCTGGTCAGGGGATGACATTACTCATACATGATGAAGAGTTCTTGGCCATCTAAAGGTGATAAC
1 ATCTGGTC-GGGGATGACATGGCTCATACGTGATGAAGAGTTC-TGGCCATCTAAAGGTGATAAC
* *
3409426 ACGGTTCCTACGTGATGAGGACGGCTGGTTATCTAAGGGTGACACGGCTCCTACGTGATGAAGAG
64 ACGGTTCCTACGTGATGAGGACGGCTGGTTATCTAAGGTTGACACGGCTCATACGTGATGAAGAG
* *
3409491 GTCTGGTCGAGGAATGACATGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACA
1 ATCTGGTCG-GGGATGACATGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACA
*
3409556 CGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTTGACACGGCTCATACGTGATGAAGAG
65 CGGTTCCTACGTGATGAGGACGGCTGGTTATCTAAGGTTGACACGGCTCATACGTGATGAAGAG
* *
3409620 ATCTGGTCTGGGGAATGACACGGCTCATACGTGATGAAGAGTTATGGCCATCTAAAGGTGATAAC
1 ATCTGGTC-GGGG-ATGACATGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAAC
3409685 ACGGTTCCTACGTGATGAGGACGGCTGG
64 ACGGTTCCTACGTGATGAGGACGGCTGG
3409713 CCATCTTTAG
Statistics
Matches: 319, Mismatches: 27, Indels: 16
0.88 0.07 0.04
Matches are distributed among these distances:
129 93 0.29
130 177 0.55
131 4 0.01
133 3 0.01
134 34 0.11
135 8 0.03
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (128 bp):
ATCTGGTCGGGGATGACATGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACAC
GGTTCCTACGTGATGAGGACGGCTGGTTATCTAAGGTTGACACGGCTCATACGTGATGAAGAG
Found at i:3409521 original size:40 final size:42
Alignment explanation
Indices: 3409326--3409660 Score: 188
Period size: 40 Copynumber: 7.9 Consensus size: 42
3409316 ACGGCTGGTT
* *
3409326 ATCTGAGG-TTGACACGGCTCATACGTGATGAAGAGTTCTGG
1 ATCTGAGGAATGACACGGCTCATACGTGATGAAGAGGTCTGG
* * *** * *
3409367 -TCAG-GGGATGACATTACTCATACATGATGAAGAGTTCTTGG
1 ATCTGAGGAATGACACGGCTCATACGTGATGAAGAGGTC-TGG
* * * * * *
3409408 CCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGG-CTGG
1 --ATCT-GAGG-AATGACACGGCTCATACGTGATGAAGA-GGTCTGG
* * *
3409454 TTATCTAAGG-GTGACACGGCTCCTACGTGATGAAGAGGTCTGG
1 --ATCTGAGGAATGACACGGCTCATACGTGATGAAGAGGTCTGG
* *
3409497 -TC-GAGGAATGACATGGCTCATACGTGATGAAGAGTTCTGG
1 ATCTGAGGAATGACACGGCTCATACGTGATGAAGAGGTCTGG
* * * * * *
3409537 CCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGG-CTGG
1 --ATCT-GAGG-AATGACACGGCTCATACGTGATGAAGA-GGTCTGG
* *
3409583 TTATCT-ATGG-TTGACACGGCTCATACGTGATGAAGAGATCTGG
1 --ATCTGA-GGAATGACACGGCTCATACGTGATGAAGAGGTCTGG
*
3409626 -TCTGGGGAATGACACGGCTCATACGTGATGAAGAG
1 ATCTGAGGAATGACACGGCTCATACGTGATGAAGAG
3409661 TTATGGCCAT
Statistics
Matches: 226, Mismatches: 46, Indels: 44
0.72 0.15 0.14
Matches are distributed among these distances:
39 5 0.02
40 64 0.28
41 29 0.13
42 3 0.01
43 53 0.23
44 3 0.01
45 9 0.04
46 38 0.17
47 21 0.09
48 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (42 bp):
ATCTGAGGAATGACACGGCTCATACGTGATGAAGAGGTCTGG
Found at i:3409714 original size:46 final size:44
Alignment explanation
Indices: 3409391--3409718 Score: 207
Period size: 46 Copynumber: 7.5 Consensus size: 44
3409381 TACTCATACA
* * *
3409391 TGATGAAGAGTTCTTGGCCATCTAAAGGTGATAACACGGTTCCTACG
1 TGATGAAGAG-GC-TGGCCATCT-AAGGTGATGACACGGCTCCTACG
* **
3409438 TGATGAGGACGGCTGGTTATCTAAGG-G-TGACACGGCTCCTACG
1 TGATGAAGA-GGCTGGCCATCTAAGGTGATGACACGGCTCCTACG
* * * *
3409481 TGATGAAGAGGTCTGG---TC-GAGG-AATGACATGGCTCATACG
1 TGATGAAGAGG-CTGGCCATCTAAGGTGATGACACGGCTCCTACG
* * *
3409521 TGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACG
1 TGATGAAGAG-GCTGGCCATCT-AAGGTGATGACACGGCTCCTACG
* ** * *
3409567 TGATGAGGACGGCTGGTTATCTATGGT--TGACACGGCTCATACG
1 TGATGAAGA-GGCTGGCCATCTAAGGTGATGACACGGCTCCTACG
* * *
3409610 TGATGAAGAGATCTGG---TCT--GGGGAATGACACGGCTCATACG
1 TGATGAAGAG-GCTGGCCATCTAAGGTG-ATGACACGGCTCCTACG
** * *
3409651 TGATGAAGAGTTATGGCCATCTAAAGGTGATAACACGGTTCCTACG
1 TGATGAAGAG-GCTGGCCATCT-AAGGTGATGACACGGCTCCTACG
*
3409697 TGATGAGGACGGCTGGCCATCT
1 TGATGAAGA-GGCTGGCCATCT
3409719 TTAGGAGTTA
Statistics
Matches: 221, Mismatches: 38, Indels: 45
0.73 0.12 0.15
Matches are distributed among these distances:
38 2 0.01
39 3 0.01
40 33 0.15
41 30 0.14
42 3 0.01
43 53 0.24
44 4 0.02
45 11 0.05
46 67 0.30
47 14 0.06
48 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.25
Consensus pattern (44 bp):
TGATGAAGAGGCTGGCCATCTAAGGTGATGACACGGCTCCTACG
Found at i:3409771 original size:28 final size:28
Alignment explanation
Indices: 3409751--3409819 Score: 95
Period size: 28 Copynumber: 2.4 Consensus size: 28
3409741 AAACCAAATT
3409751 AAAGATTTGTTTCAAAAGAAACAAACCC
1 AAAGATTTGTTTCAAAAGAAACAAACCC
* *
3409779 AAAGATTTGTTTCAAGAA-AAACATACTC
1 AAAGATTTGTTTCAA-AAGAAACAAACCC
3409807 AAAGACTTTGTTT
1 AAAGA-TTTGTTT
3409820 GTTTTGTTTC
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
28 28 0.76
29 9 0.24
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.29
Consensus pattern (28 bp):
AAAGATTTGTTTCAAAAGAAACAAACCC
Found at i:3410147 original size:15 final size:15
Alignment explanation
Indices: 3410123--3410166 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
3410113 AAGATGATCT
*
3410123 TGTTTTAAGAGAAAA
1 TGTTTCAAGAGAAAA
3410138 TGTTTCAAGAGAAAA
1 TGTTTCAAGAGAAAA
*
3410153 TGTTTCAAGTGAAA
1 TGTTTCAAGAGAAA
3410167 CGACTCAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.43, C:0.05, G:0.20, T:0.32
Consensus pattern (15 bp):
TGTTTCAAGAGAAAA
Found at i:3410320 original size:40 final size:40
Alignment explanation
Indices: 3410260--3410339 Score: 126
Period size: 40 Copynumber: 2.0 Consensus size: 40
3410250 TTTTAATAAA
3410260 AAACAATCTCAAAGGTGGGTAGTTTT-AAAAGAAATTGTCT
1 AAACAATCTCAAAGGTGGGTA-TTTTCAAAAGAAATTGTCT
* *
3410300 AAACGATCTCAAAGGTGGGTATTTTCAAAAGAAGTTGTCT
1 AAACAATCTCAAAGGTGGGTATTTTCAAAAGAAATTGTCT
3410340 CGAGAGACAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
39 4 0.11
40 33 0.89
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.30
Consensus pattern (40 bp):
AAACAATCTCAAAGGTGGGTATTTTCAAAAGAAATTGTCT
Found at i:3410392 original size:62 final size:63
Alignment explanation
Indices: 3410321--3410444 Score: 187
Period size: 63 Copynumber: 2.0 Consensus size: 63
3410311 AAGGTGGGTA
* * *
3410321 TTTTCAAAAGAAGTTGTC-TCGAGAGACAAAATTTTGTTTCAAAGGAAACAAACTCAAAGATT
1 TTTTCAAAAGAAATTGTCTTCAAGAGACAAAATTTTGTTTCAAAAGAAACAAACTCAAAGATT
* * *
3410383 TTTTCAAAAGAAATTGTCTTTAAGAGATAAAATTTTGTTTCAAAAGAAACAGACTCAAAGAT
1 TTTTCAAAAGAAATTGTCTTCAAGAGACAAAATTTTGTTTCAAAAGAAACAAACTCAAAGAT
3410445 GGATCACATC
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
62 17 0.31
63 38 0.69
ACGTcount: A:0.44, C:0.11, G:0.15, T:0.31
Consensus pattern (63 bp):
TTTTCAAAAGAAATTGTCTTCAAGAGACAAAATTTTGTTTCAAAAGAAACAAACTCAAAGATT
Found at i:3410563 original size:121 final size:118
Alignment explanation
Indices: 3410343--3410566 Score: 265
Period size: 121 Copynumber: 1.9 Consensus size: 118
3410333 GTTGTCTCGA
* *
3410343 GAGACAAAATTTTGTTTCAAAGGAAACAAACTCAAAGATTTTTTCAAAAGAAATTGTCTTTAAGA
1 GAGACAAAATTTTGTTTCAAAGGAAACAAACTCAAAGATTTTTTCAAAAGAAACTGTCTTCAAGA
*
3410408 GATAAAATTTTGTTTCAAAAGAAACAGACTCAAAGATGGATCACATCTTAAGT
66 GAGAAAATTTTGTTTCAAAAGAAACAGACTCAAAGATGGATCACATCTTAAGT
* * * **
3410461 GAGACCAAA-TTTGTTTCAAATGAAACAATCTCAAAAGTTAGTTTTTTCATTAGAAACTGTC-TC
1 GAGACAAAATTTTGTTTCAAAGGAAACAAACTC-AAAG--A-TTTTTTCAAAAGAAACTGTCTTC
** **
3410524 AAGAGAGACAACA-TTTGTTTTTAAAGAAATTGACTCAAAGATG
62 AAGAGAGA-AA-ATTTTGTTTCAAAAGAAACAGACTCAAAGATG
3410567 ATTTTGTTAA
Statistics
Matches: 88, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
117 21 0.24
118 12 0.14
120 9 0.10
121 45 0.51
122 1 0.01
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (118 bp):
GAGACAAAATTTTGTTTCAAAGGAAACAAACTCAAAGATTTTTTCAAAAGAAACTGTCTTCAAGA
GAGAAAATTTTGTTTCAAAAGAAACAGACTCAAAGATGGATCACATCTTAAGT
Found at i:3410713 original size:66 final size:66
Alignment explanation
Indices: 3410625--3410777 Score: 193
Period size: 67 Copynumber: 2.3 Consensus size: 66
3410615 AAAGATTTAC
* * *
3410625 TTCAAAAGAAACGGTCTCAAGAGATACAAAATTCAT-TTT-AAGAGAAACAGATTCAAAGATTTT
1 TTCAAAAGAAACGATCTCAAGAGAGACAAAATT-ATGTTTCAA-AGAAACAGACTCAAAGATTTT
3410688 TGT
64 TGT
** * *
3410691 TTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAGACTCAAAGATTTTT
1 TTCAAAAGAAACGATCTCAAGAGAGACAAAATTATGTTT-CAAAGAAACAGACTCAAAGATTTTT
3410756 GT
65 GT
*
3410758 TTCAAAAGAAACAATCTCAA
1 TTCAAAAGAAACGATCTCAA
3410778 AGATTTTTTT
Statistics
Matches: 74, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
65 1 0.01
66 31 0.42
67 40 0.54
68 2 0.03
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.29
Consensus pattern (66 bp):
TTCAAAAGAAACGATCTCAAGAGAGACAAAATTATGTTTCAAAGAAACAGACTCAAAGATTTTTG
T
Found at i:3410756 original size:30 final size:30
Alignment explanation
Indices: 3410722--3410790 Score: 106
Period size: 30 Copynumber: 2.3 Consensus size: 30
3410712 AGAGACAAAA
3410722 TTTTGTTTCCAAAGAAACAGA-CTCAAAGAT
1 TTTTGTTTCCAAAGAAACA-ATCTCAAAGAT
*
3410752 TTTTGTTTCAAAAGAAACAATCTCAAAGAT
1 TTTTGTTTCCAAAGAAACAATCTCAAAGAT
3410782 TTTT-TTTCC
1 TTTTGTTTCC
3410791 GTAAAATTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
29 5 0.14
30 31 0.86
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (30 bp):
TTTTGTTTCCAAAGAAACAATCTCAAAGAT
Found at i:3411226 original size:36 final size:36
Alignment explanation
Indices: 3411142--3411245 Score: 115
Period size: 36 Copynumber: 3.0 Consensus size: 36
3411132 GAGAAAATGA
** *
3411142 TGTCTCAAGCGAGACAAAA-TTTGCTTTA-AGATAT
1 TGTCTCAAGCGAGACAAAATTTTTTTTTAGAGAAAT
* **
3411176 AGTCTCAAATGAGACAAAATTTTTTTTTAGAGAAAT
1 TGTCTCAAGCGAGACAAAATTTTTTTTTAGAGAAAT
* *
3411212 TGTCTCAAGCGAGACAAAGTTTGTTTTT-GAGAAA
1 TGTCTCAAGCGAGACAAAATTTTTTTTTAGAGAAA
3411246 ACGATCTCAA
Statistics
Matches: 57, Mismatches: 11, Indels: 3
0.80 0.15 0.04
Matches are distributed among these distances:
34 16 0.28
35 13 0.23
36 28 0.49
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.34
Consensus pattern (36 bp):
TGTCTCAAGCGAGACAAAATTTTTTTTTAGAGAAAT
Found at i:3411254 original size:36 final size:34
Alignment explanation
Indices: 3411143--3411261 Score: 105
Period size: 36 Copynumber: 3.4 Consensus size: 34
3411133 AGAAAATGAT
* * *
3411143 GTCTCAAGCGAGACAAAATTTG-CTTTAAGATATA
1 GTCTCAAGCGAGACAAAATTTGTTTTTGAGA-AAA
** * *
3411177 GTCTCAAATGAGACAAAATTTTTTTTTAGAGAAATT
1 GTCTCAAGCGAGACAAAATTTGTTTTT-GAGAAA-A
*
3411213 GTCTCAAGCGAGACAAAGTTTGTTTTTGAGAAAA
1 GTCTCAAGCGAGACAAAATTTGTTTTTGAGAAAA
*
3411247 CGATCTCAAGTGAGA
1 -G-TCTCAAGCGAGA
3411262 TCAACTTTGT
Statistics
Matches: 67, Mismatches: 13, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
34 19 0.28
35 11 0.16
36 37 0.55
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.31
Consensus pattern (34 bp):
GTCTCAAGCGAGACAAAATTTGTTTTTGAGAAAA
Found at i:3411400 original size:105 final size:101
Alignment explanation
Indices: 3411213--3411445 Score: 274
Period size: 105 Copynumber: 2.3 Consensus size: 101
3411203 TAGAGAAATT
* * *
3411213 GTCTCAAGCGAGAC-AAAGTTTGTTTTTGAGAAAACGATCTCAAGTGAGATCAACTTTGTTTAAT
1 GTCTCAAGCGAGACGAAA-TTTG-TTTTGAAAAAACAAACTCAAGTGAGATCAACTTTGTTTAAT
* * *
3411277 GTGAAACAAATTCGAAATTTGGATCTCAAAGGGAGAAG
64 GTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAAG
* *
3411315 GTCTCAAGCGAGACGAAATTTGTTTTGAAAGAAACAACACTCTAAGGTGAGATTAATTTTGTTTT
1 GTCTCAAGCGAGACGAAATTTGTTTTGAAA-AAACAA-ACTC-AA-GTGAGATCAACTTTG-TTT
* *
3411380 AA-GT-AAATCAAATTCAAAATTTGTATCTCAAAGGAAAAAT
61 AATGTGAAA-CAAATTCAAAATTTGGATCTCAAAGGAAAAAG
*
3411420 GTCTCAAGCGAGACGAAGTTTGTTTT
1 GTCTCAAGCGAGACGAAATTTGTTTT
3411446 AAGAGAATTT
Statistics
Matches: 113, Mismatches: 11, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
101 7 0.06
102 23 0.20
103 6 0.05
104 5 0.04
105 67 0.59
106 5 0.04
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.30
Consensus pattern (101 bp):
GTCTCAAGCGAGACGAAATTTGTTTTGAAAAAACAAACTCAAGTGAGATCAACTTTGTTTAATGT
GAAACAAATTCAAAATTTGGATCTCAAAGGAAAAAG
Found at i:3411637 original size:36 final size:35
Alignment explanation
Indices: 3411604--3411721 Score: 157
Period size: 36 Copynumber: 3.3 Consensus size: 35
3411594 AGTGAGACGG
*
3411604 AATTTGTTTTTCAAGAAATTGTCTCAAACGAGACAA
1 AATTTGTTTTT-AAGAAATTGTCTCAAGCGAGACAA
*
3411640 AATTTGTTTTT-AGAAAGCTGTCTCAAGCGAGACAA
1 AATTTGTTTTTAAGAAA-TTGTCTCAAGCGAGACAA
**
3411675 AATTTGCTTTGAAAGAAATTGTCTCAAGCGAGACAAA
1 AATTTG-TTTTTAAGAAATTGTCTCAAGCGAGAC-AA
3411712 AATTTGTTTT
1 AATTTGTTTT
3411722 AAAATTCTCA
Statistics
Matches: 72, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
34 5 0.07
35 22 0.31
36 32 0.44
37 13 0.18
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.34
Consensus pattern (35 bp):
AATTTGTTTTTAAGAAATTGTCTCAAGCGAGACAA
Found at i:3411761 original size:53 final size:53
Alignment explanation
Indices: 3411696--3411827 Score: 246
Period size: 53 Copynumber: 2.5 Consensus size: 53
3411686 AAAGAAATTG
*
3411696 TCTCAAGCGAGACAAAAATTTGTTTTAAAATTCTCAAAATTTGTGGAAAAATA
1 TCTCAAGTGAGACAAAAATTTGTTTTAAAATTCTCAAAATTTGTGGAAAAATA
3411749 TCTCAAGTGAGACAAAAATTTGTTTTAAAATTCTCAAAATTTGTGGAAAAATA
1 TCTCAAGTGAGACAAAAATTTGTTTTAAAATTCTCAAAATTTGTGGAAAAATA
3411802 TCTCAAGTGAGACAAAAATTTTGTTT
1 TCTCAAGTGAGACAAAAA-TTTGTTT
3411828 CAAGAAAAAC
Statistics
Matches: 77, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
53 70 0.91
54 7 0.09
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.34
Consensus pattern (53 bp):
TCTCAAGTGAGACAAAAATTTGTTTTAAAATTCTCAAAATTTGTGGAAAAATA
Found at i:3412153 original size:18 final size:19
Alignment explanation
Indices: 3412122--3412157 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
3412112 GCAAATTTTA
*
3412122 TATATTATGTATGTATGTG
1 TATATTATGCATGTATGTG
3412141 TATA-TATGCATGTATGT
1 TATATTATGCATGTATGT
3412158 ATGTTTTCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.28, C:0.03, G:0.19, T:0.50
Consensus pattern (19 bp):
TATATTATGCATGTATGTG
Found at i:3412156 original size:22 final size:21
Alignment explanation
Indices: 3412120--3412161 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
3412110 ATGCAAATTT
*
3412120 TATATATTATGTATGTATGTG
1 TATATATCATGTATGTATGTG
3412141 TATATATGCATGTATGTATGT
1 TATATAT-CATGTATGTATGT
3412162 TTTCTCGATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.29, C:0.02, G:0.19, T:0.50
Consensus pattern (21 bp):
TATATATCATGTATGTATGTG
Found at i:3413970 original size:26 final size:24
Alignment explanation
Indices: 3413940--3414010 Score: 78
Period size: 20 Copynumber: 3.0 Consensus size: 24
3413930 CAAGGTGGAA
3413940 AGAATATTTCAAGGTCTCAAAGAG
1 AGAATATTTCAAGGTCTCAAAGAG
* *
3413964 AGGGAATGTTTCAAGG--TCGAA-A-
1 A--GAATATTTCAAGGTCTCAAAGAG
3413986 AGAATATTTCAAGGTCTCAAAGAG
1 AGAATATTTCAAGGTCTCAAAGAG
3414010 A
1 A
3414011 TAGAATGTCA
Statistics
Matches: 37, Mismatches: 4, Indels: 12
0.70 0.08 0.23
Matches are distributed among these distances:
20 12 0.32
22 5 0.14
23 2 0.05
24 6 0.16
26 12 0.32
ACGTcount: A:0.41, C:0.11, G:0.24, T:0.24
Consensus pattern (24 bp):
AGAATATTTCAAGGTCTCAAAGAG
Found at i:3413995 original size:20 final size:20
Alignment explanation
Indices: 3413927--3414001 Score: 62
Period size: 20 Copynumber: 3.5 Consensus size: 20
3413917 AAATACAGTG
*
3413927 TTTCAAGGT-GGAAAGAATA
1 TTTCAAGGTCGAAAAGAATA
* *
3413946 TTTCAAGGTCTCAAAGAGAGGGAATG
1 TTTCAAGG--TCGAA-A-A--GAATA
3413972 TTTCAAGGTCGAAAAGAATA
1 TTTCAAGGTCGAAAAGAATA
3413992 TTTCAAGGTC
1 TTTCAAGGTC
3414002 TCAAAGAGAT
Statistics
Matches: 44, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
19 8 0.18
20 14 0.32
21 1 0.02
22 2 0.05
23 2 0.05
24 5 0.11
26 12 0.27
ACGTcount: A:0.37, C:0.11, G:0.25, T:0.27
Consensus pattern (20 bp):
TTTCAAGGTCGAAAAGAATA
Found at i:3414015 original size:26 final size:26
Alignment explanation
Indices: 3413937--3414016 Score: 82
Period size: 26 Copynumber: 3.3 Consensus size: 26
3413927 TTTCAAGGTG
3413937 GAAAGAATATTTCAAGGTCTCAAAGA
1 GAAAGAATATTTCAAGGTCTCAAAGA
** *
3413963 GAGGGAATGTTTCAAGG--TC---GA
1 GAAAGAATATTTCAAGGTCTCAAAGA
3413984 -AAAGAATATTTCAAGGTCTCAAAGA
1 GAAAGAATATTTCAAGGTCTCAAAGA
*
3414009 GATAGAAT
1 GAAAGAAT
3414017 GTCAAAAATT
Statistics
Matches: 41, Mismatches: 7, Indels: 12
0.68 0.12 0.20
Matches are distributed among these distances:
20 13 0.32
21 2 0.05
22 2 0.05
24 2 0.05
25 2 0.05
26 20 0.49
ACGTcount: A:0.42, C:0.10, G:0.24, T:0.24
Consensus pattern (26 bp):
GAAAGAATATTTCAAGGTCTCAAAGA
Found at i:3414017 original size:46 final size:45
Alignment explanation
Indices: 3413925--3414018 Score: 152
Period size: 46 Copynumber: 2.1 Consensus size: 45
3413915 ATAAATACAG
* *
3413925 TGTTTCAAGGTGGAAAGAATATTTCAAGGTCTCAAAGAGAGGGAA
1 TGTTTCAAGGTGAAAAGAATATTTCAAGGTCTCAAAGAGAGAGAA
*
3413970 TGTTTCAAGGTCGAAAAGAATATTTCAAGGTCTCAAAGAGATAGAA
1 TGTTTCAAGGT-GAAAAGAATATTTCAAGGTCTCAAAGAGAGAGAA
3414016 TGT
1 TGT
3414019 CAAAAATTGG
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
45 11 0.24
46 34 0.76
ACGTcount: A:0.38, C:0.10, G:0.26, T:0.27
Consensus pattern (45 bp):
TGTTTCAAGGTGAAAAGAATATTTCAAGGTCTCAAAGAGAGAGAA
Found at i:3416508 original size:31 final size:32
Alignment explanation
Indices: 3416452--3416513 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
3416442 TGACAAAATG
3416452 ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
1 ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
3416484 ACACAAACAAAAGAGAA-AAATAAGTTAGTA
1 ACACAAACAAAAGAGAAGAAATAAGTTAGTA
3416514 CATGTAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.43
32 17 0.57
ACGTcount: A:0.61, C:0.10, G:0.15, T:0.15
Consensus pattern (32 bp):
ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
Found at i:3417593 original size:16 final size:16
Alignment explanation
Indices: 3417574--3417604 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
3417564 TTTTAAAACA
3417574 ATTTTAAAGAAAAATC
1 ATTTTAAAGAAAAATC
3417590 ATTTTAAAGAAAAAT
1 ATTTTAAAGAAAAAT
3417605 GGTCTGCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.32
Consensus pattern (16 bp):
ATTTTAAAGAAAAATC
Found at i:3421051 original size:13 final size:13
Alignment explanation
Indices: 3421033--3421057 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3421023 ATGTTCATTT
3421033 ATTTATGTTTGTC
1 ATTTATGTTTGTC
3421046 ATTTATGTTTGT
1 ATTTATGTTTGT
3421058 TTATGTTCGA
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:0.16, C:0.04, G:0.16, T:0.64
Consensus pattern (13 bp):
ATTTATGTTTGTC
Found at i:3429036 original size:43 final size:43
Alignment explanation
Indices: 3428956--3429038 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
3428946 ATAGTGGCCA
* ** * *
3428956 AGGGGTATCGATACTACTTTGCAGTGTAGTATTGATACCGTCC
1 AGGGGTATCGATACTACTATGCAAAGTAATATCGATACCGTCC
*
3428999 AGGGGTATCGATACTACTATGTAAAGTAATATCGATACCG
1 AGGGGTATCGATACTACTATGCAAAGTAATATCGATACCG
3429039 GTCATGGTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (43 bp):
AGGGGTATCGATACTACTATGCAAAGTAATATCGATACCGTCC
Found at i:3430185 original size:24 final size:24
Alignment explanation
Indices: 3430153--3430202 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
3430143 TTGCCTGGCT
3430153 GGCTCGTCCTCGGGCTGGTTTGTG
1 GGCTCGTCCTCGGGCTGGTTTGTG
*
3430177 GGCTCGTCCTTGGGCTGGTTTGTG
1 GGCTCGTCCTCGGGCTGGTTTGTG
3430201 GG
1 GG
3430203 ATTGTCGACA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.00, C:0.22, G:0.44, T:0.34
Consensus pattern (24 bp):
GGCTCGTCCTCGGGCTGGTTTGTG
Found at i:3431905 original size:21 final size:22
Alignment explanation
Indices: 3431879--3431972 Score: 99
Period size: 21 Copynumber: 4.5 Consensus size: 22
3431869 CGATTCAAGG
3431879 GTATCGATACCCGTTGAAG-AA
1 GTATCGATACCCGTTGAAGAAA
3431900 GTATCGATACCCGTTGAAG-AA
1 GTATCGATACCCGTTGAAGAAA
*
3431921 GTATCGATA-CTGTT-AAGAACA
1 GTATCGATACCCGTTGAAGAA-A
* * * *
3431942 ATATCGATAGCCATTGAAGCAA
1 GTATCGATACCCGTTGAAGAAA
3431964 -TATCGATAC
1 GTATCGATAC
3431973 TATGCTAGTA
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
19 3 0.05
20 5 0.08
21 47 0.75
22 4 0.06
23 4 0.06
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (22 bp):
GTATCGATACCCGTTGAAGAAA
Found at i:3433073 original size:107 final size:107
Alignment explanation
Indices: 3432887--3433100 Score: 428
Period size: 107 Copynumber: 2.0 Consensus size: 107
3432877 TGAAATCTAG
3432887 CACATAATCGAACACTAAACATAATGTCGGGTCTACTTGTGGTTAGATAAAGCAAAGAGCCAATC
1 CACATAATCGAACACTAAACATAATGTCGGGTCTACTTGTGGTTAGATAAAGCAAAGAGCCAATC
3432952 ATAAACATATAGAGTTTAACATCTACACATTTACATTCTTCA
66 ATAAACATATAGAGTTTAACATCTACACATTTACATTCTTCA
3432994 CACATAATCGAACACTAAACATAATGTCGGGTCTACTTGTGGTTAGATAAAGCAAAGAGCCAATC
1 CACATAATCGAACACTAAACATAATGTCGGGTCTACTTGTGGTTAGATAAAGCAAAGAGCCAATC
3433059 ATAAACATATAGAGTTTAACATCTACACATTTACATTCTTCA
66 ATAAACATATAGAGTTTAACATCTACACATTTACATTCTTCA
3433101 TCTTTGTTAA
Statistics
Matches: 107, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
107 107 1.00
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.28
Consensus pattern (107 bp):
CACATAATCGAACACTAAACATAATGTCGGGTCTACTTGTGGTTAGATAAAGCAAAGAGCCAATC
ATAAACATATAGAGTTTAACATCTACACATTTACATTCTTCA
Found at i:3435178 original size:235 final size:235
Alignment explanation
Indices: 3434767--3435240 Score: 894
Period size: 235 Copynumber: 2.0 Consensus size: 235
3434757 TCATCTTTCG
3434767 TACTTAAAAATAGAACCCAAGTAAATCTATAATAGTCATCTACCAATACAAAGTCATATTGTTTT
1 TACTTAAAAATAGAACCCAAGTAAATCTATAATAGTCATCTACCAATACAAAGTCATATTGTTTT
* * *
3434832 TCACCCAAGCTAGTAGTTCTAATTGGCCTAAAAAGATATATATGGATTAATTGTAATACTCTACT
66 CCACCCAAGCTAGTAGTTCTAATTGGCCCAAAAAGATATATATGGATCAATTGTAATACTCTACT
3434897 AGTTGATACATCGCTAATGGATTTAAAGGAAACTTTCTTATGTTTACCTTTTGTACATGCATCAC
131 AGTTGATACATCGCTAATGGATTTAAAGGAAACTTTCTTATGTTTACCTTTTGTACATGCATCAC
* *
3434962 ATATTTTATCAAGATTAAATTTTAGTTTTGGCAAGCCTCT
196 AGATTTTATCAAGATTAAATTTCAGTTTTGGCAAGCCTCT
3435002 TACTTAAAAATAGAACCCAAGTAAATCTATAATAGTCATCTACCAATACAAAGTCATATTGTTTT
1 TACTTAAAAATAGAACCCAAGTAAATCTATAATAGTCATCTACCAATACAAAGTCATATTGTTTT
3435067 CCACCCAAGCTAGTAGTTCTAATTGGCCCAAAAAGATATATATGGATCAATTGTAATACTCTACT
66 CCACCCAAGCTAGTAGTTCTAATTGGCCCAAAAAGATATATATGGATCAATTGTAATACTCTACT
*
3435132 AGTTGATACATCGCTAATGGATTTAAAGGAAACTTTCTTATGTTTACCTTTTGTACATGCATCAT
131 AGTTGATACATCGCTAATGGATTTAAAGGAAACTTTCTTATGTTTACCTTTTGTACATGCATCAC
3435197 AGATTTTATCAAGATTAAATTTCAGTTTTGGCAAGCCTCT
196 AGATTTTATCAAGATTAAATTTCAGTTTTGGCAAGCCTCT
3435237 TACT
1 TACT
3435241 AAATTGCCTT
Statistics
Matches: 233, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
235 233 1.00
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.36
Consensus pattern (235 bp):
TACTTAAAAATAGAACCCAAGTAAATCTATAATAGTCATCTACCAATACAAAGTCATATTGTTTT
CCACCCAAGCTAGTAGTTCTAATTGGCCCAAAAAGATATATATGGATCAATTGTAATACTCTACT
AGTTGATACATCGCTAATGGATTTAAAGGAAACTTTCTTATGTTTACCTTTTGTACATGCATCAC
AGATTTTATCAAGATTAAATTTCAGTTTTGGCAAGCCTCT
Found at i:3438620 original size:19 final size:19
Alignment explanation
Indices: 3438582--3438621 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
3438572 CGAATAATTG
* * *
3438582 AATCGAATATAATATTTTA
1 AATCAAATATAAAATCTTA
3438601 AATCAAATATAAAATCTTA
1 AATCAAATATAAAATCTTA
3438620 AA
1 AA
3438622 ATTACTTAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.07, G:0.03, T:0.35
Consensus pattern (19 bp):
AATCAAATATAAAATCTTA
Found at i:3439159 original size:6 final size:6
Alignment explanation
Indices: 3439148--3439194 Score: 94
Period size: 6 Copynumber: 7.8 Consensus size: 6
3439138 TTCAACTTCG
3439148 CTCTCC CTCTCC CTCTCC CTCTCC CTCTCC CTCTCC CTCTCC CTCTC
1 CTCTCC CTCTCC CTCTCC CTCTCC CTCTCC CTCTCC CTCTCC CTCTC
3439195 TATAATTGTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.00, C:0.66, G:0.00, T:0.34
Consensus pattern (6 bp):
CTCTCC
Found at i:3442055 original size:16 final size:16
Alignment explanation
Indices: 3442030--3442061 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
3442020 TATATTTAGG
*
3442030 TTTATTTTATTTTTTA
1 TTTATGTTATTTTTTA
3442046 TTTATGTTATTTTTTA
1 TTTATGTTATTTTTTA
3442062 CTTTTTTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (16 bp):
TTTATGTTATTTTTTA
Found at i:3442066 original size:24 final size:23
Alignment explanation
Indices: 3442031--3442122 Score: 89
Period size: 25 Copynumber: 3.8 Consensus size: 23
3442021 ATATTTAGGT
3442031 TTATTTTATTTTTTATTTATGTTA
1 TTATTTTATTTTTTATTTAT-TTA
*
3442055 TT-TTTTACTTTTTTATTTATTTG
1 TTATTTTA-TTTTTTATTTATTTA
3442078 TTATTTTAATTATTTTATTTAGGTTTA
1 TTATTTT-ATT-TTTTATTTA--TTTA
*
3442105 TTA-TTAATTGTTTTATTT
1 TTATTTTATT-TTTTATTT
3442123 TGTAATGTAT
Statistics
Matches: 58, Mismatches: 4, Indels: 11
0.79 0.05 0.15
Matches are distributed among these distances:
23 9 0.16
24 20 0.34
25 21 0.36
26 2 0.03
27 6 0.10
ACGTcount: A:0.21, C:0.01, G:0.05, T:0.73
Consensus pattern (23 bp):
TTATTTTATTTTTTATTTATTTA
Found at i:3442111 original size:25 final size:23
Alignment explanation
Indices: 3442022--3442122 Score: 105
Period size: 24 Copynumber: 4.2 Consensus size: 23
3442012 TAGGCCCTTA
3442022 TATTTAGGTTTATTTT-ATTTTT
1 TATTTAGGTTTATTTTAATTTTT
* * *
3442044 TATTTATGTTATTTTTTACTTTTT
1 TATTTAGGTT-TATTTTAATTTTT
**
3442068 TATTTATTTGTTATTTTAATTATTT
1 TATTTAGGT-TTATTTTAATT-TTT
3442093 TATTTAGGTTTATTATTAATTGTTT
1 TATTTAGGTTTATT-TTAATT-TTT
3442118 TATTT
1 TATTT
3442123 TGTAATGTAT
Statistics
Matches: 65, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
22 9 0.14
23 5 0.08
24 26 0.40
25 25 0.38
ACGTcount: A:0.21, C:0.01, G:0.07, T:0.71
Consensus pattern (23 bp):
TATTTAGGTTTATTTTAATTTTT
Found at i:3443836 original size:31 final size:29
Alignment explanation
Indices: 3443779--3443836 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 29
3443769 TGAATAATCA
*
3443779 TTTCAACTAACTTGATTCTTTTTGTCTCG
1 TTTCAACTAACTTGATTCCTTTTGTCTCG
3443808 TTTCAACTAACATTGATTTCCTTTTGTCT
1 TTTCAACTAAC-TTGA-TTCCTTTTGTCT
3443837 GGACTTATTG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 11 0.42
30 4 0.15
31 11 0.42
ACGTcount: A:0.19, C:0.21, G:0.09, T:0.52
Consensus pattern (29 bp):
TTTCAACTAACTTGATTCCTTTTGTCTCG
Found at i:3448052 original size:109 final size:110
Alignment explanation
Indices: 3447915--3448237 Score: 442
Period size: 109 Copynumber: 3.0 Consensus size: 110
3447905 TGATAGGATG
* *
3447915 TTCAAATGAACTTTT-AAAAGAAGATAAGCCTAATTTTTAGGGGTTTCTTGATGTTTTCAAATGA
1 TTCAAATGAA-TTTTGAAAACAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGTTTTCAAATGA
3447979 GTTTTTAGAAACTAAGCCTGA-TTTAAGGGGTTTCTTGATGATGAT
65 GTTTTTAGAAACTAAGCCTGATTTTAAGGGGTTTCTTGATGATGAT
*
3448024 TTCAAATGAATTTTGAAAACAAGCTAAGCCTAATTTTTAGGGGGTTT-TTTATGTTTTCAAATGA
1 TTCAAATGAATTTTGAAAACAAGCTAAGCCTAATTTTTA-GGGGTTTCTTGATGTTTTCAAATGA
* * * * *
3448088 GCTTTTAGACACTAAGACTGATTTTCAGGGGTTTCTTGATTA-GAT
65 GTTTTTAGAAACTAAGCCTGATTTTAAGGGGTTTCTTGATGATGAT
* * * * *
3448133 TTCCAATGAATTTTGAAAATAAGCTAAGCCTAATTTTTAGGGGTTTCTAGAT-TTTTTAAATGAA
1 TTCAAATGAATTTTGAAAACAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGTTTTCAAATGAG
* * *
3448197 TTTTTAGAAACTAA-CCTAATTTTTAGGAGTTTCTTGATGAT
66 TTTTTAGAAACTAAGCCTGATTTTAAGGGGTTTCTTGATGAT
3448238 AACTGAAAAC
Statistics
Matches: 188, Mismatches: 21, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
107 21 0.11
108 33 0.18
109 109 0.58
110 25 0.13
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (110 bp):
TTCAAATGAATTTTGAAAACAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGTTTTCAAATGAG
TTTTTAGAAACTAAGCCTGATTTTAAGGGGTTTCTTGATGATGAT
Found at i:3448112 original size:52 final size:53
Alignment explanation
Indices: 3447939--3448231 Score: 169
Period size: 54 Copynumber: 5.5 Consensus size: 53
3447929 TAAAAGAAGA
* * * *
3447939 TAAGCCTAATTTTTA-GGGGTTTCTTGATGTTTTCAAATGAGTTTTTAGAAAC
1 TAAGCCTGATTTTTAGGGGGTTTCTTTATGTTTTCAAATGAGATTTTAGACAC
* * *
3447991 TAAGCCTGA--TTTAAGGGGTTTCTTGATGATGATTTCAAATGA-ATTTTGAAAACAAGC
1 TAAGCCTGATTTTTAGGGGGTTTCTT--T-ATGTTTTCAAATGAGATTTT--AGAC-A-C
* *
3448048 TAAGCCTAATTTTTAGGGGGTTT-TTTATGTTTTCAAATGAGCTTTTAGACAC
1 TAAGCCTGATTTTTAGGGGGTTTCTTTATGTTTTCAAATGAGATTTTAGACAC
* * * * * * *
3448100 TAAGACTGATTTTCA-GGGGTTTCTTGATTAGATTTCCAATGA-ATTTTGAAAATAAGC
1 TAAGCCTGATTTTTAGGGGGTTTCTTTA-T-GTTTTCAAATGAGATTTT--AGA-CA-C
* ** * *
3448157 TAAGCCTAATTTTTA-GGGGTTTCTAGAT-TTTTTAAATGA-ATTTTTAGAAAC
1 TAAGCCTGATTTTTAGGGGGTTTCTTTATGTTTTCAAATGAGA-TTTTAGACAC
* *
3448208 TAA-CCTAATTTTTA-GGAGTTTCTT
1 TAAGCCTGATTTTTAGGGGGTTTCTT
3448232 GATGATAACT
Statistics
Matches: 192, Mismatches: 30, Indels: 40
0.73 0.11 0.15
Matches are distributed among these distances:
50 23 0.12
51 21 0.11
52 26 0.14
53 12 0.06
54 35 0.18
55 21 0.11
56 8 0.04
57 33 0.17
58 2 0.01
59 11 0.06
ACGTcount: A:0.29, C:0.10, G:0.18, T:0.42
Consensus pattern (53 bp):
TAAGCCTGATTTTTAGGGGGTTTCTTTATGTTTTCAAATGAGATTTTAGACAC
Found at i:3448489 original size:38 final size:39
Alignment explanation
Indices: 3448444--3448612 Score: 243
Period size: 38 Copynumber: 4.4 Consensus size: 39
3448434 AGGAATAAAC
* * * *
3448444 ATCTCGCTTCAGATAGTTTCACTTGAAGCAAAAGA-TTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
*
3448482 ATCTCGCTTGAGATAGTTTCACTCAAAACAGAAGATTTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
* *
3448521 ATCTCGCTTGAGATAATTTCACTAGAAACAGAAGATTTTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGA-TTTT
3448561 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGA-TTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
*
3448599 ATCTCACTTGAGAT
1 ATCTCGCTTGAGAT
3448613 TATTTTTTCA
Statistics
Matches: 118, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
38 46 0.39
39 35 0.30
40 37 0.31
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.34
Consensus pattern (39 bp):
ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
Found at i:3448590 original size:79 final size:76
Alignment explanation
Indices: 3448444--3448617 Score: 249
Period size: 79 Copynumber: 2.2 Consensus size: 76
3448434 AGGAATAAAC
* * * *
3448444 ATCTCGCTTCAGATAGTTTCACTTGAAGCAAAAGATTTATCTCGCTTGAGATAGTTTCACTCAAA
1 ATCTCGCTTGAGATAATTTCACTAGAAACAAAAGATTTATCTCGCTTGAGATAGTTTCACTCAAA
3448509 ACAGAAGATTTT
66 ACAGAAGA-TTT
* *
3448521 ATCTCGCTTGAGATAATTTCACTAGAAACAGAAGATTTTTATCTCGCTTGAGATAGTTTCACTCG
1 ATCTCGCTTGAGATAATTTCACTAGAAACAAAAGA--TTTATCTCGCTTGAGATAGTTTCACTCA
3448586 AAACAGAAGATTT
64 AAACAGAAGATTT
* *
3448599 ATCTCACTTGAGATTATTT
1 ATCTCGCTTGAGATAATTT
3448618 TTTCATAAAA
Statistics
Matches: 87, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
77 30 0.34
78 20 0.23
79 37 0.43
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (76 bp):
ATCTCGCTTGAGATAATTTCACTAGAAACAAAAGATTTATCTCGCTTGAGATAGTTTCACTCAAA
ACAGAAGATTT
Found at i:3449188 original size:2 final size:2
Alignment explanation
Indices: 3449181--3449211 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3449171 CAAATATTAG
3449181 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3449212 TTCTCAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Done.