Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009324.1 Hibiscus syriacus cultivar Beakdansim tig00113088_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: 69885
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.32
Found at i:10953 original size:3 final size:3
Alignment explanation
Indices: 10945--10969 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
10935 TGCTTAATTC
10945 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
10970 TACTAACAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:13620 original size:23 final size:23
Alignment explanation
Indices: 13590--13639 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
13580 ATAATATATT
13590 AATACCTTATGTATGTTTTATGG
1 AATACCTTATGTATGTTTTATGG
13613 AATACCTTATGTATGTTTTATGG
1 AATACCTTATGTATGTTTTATGG
13636 AATA
1 AATA
13640 TGCTGGCATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.30, C:0.08, G:0.16, T:0.46
Consensus pattern (23 bp):
AATACCTTATGTATGTTTTATGG
Found at i:15467 original size:32 final size:32
Alignment explanation
Indices: 15416--15479 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
15406 TAATGTGACC
* *
15416 CTTGGGTAGGCTCTGAGGCCCCAAGAAACTTT
1 CTTGGGTAGACTCTCAGGCCCCAAGAAACTTT
*
15448 CTTGGGTAGACTCTCAGGCCCCAAGACACTTT
1 CTTGGGTAGACTCTCAGGCCCCAAGAAACTTT
15480 TTTCGGTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (32 bp):
CTTGGGTAGACTCTCAGGCCCCAAGAAACTTT
Found at i:17630 original size:86 final size:86
Alignment explanation
Indices: 17485--17665 Score: 344
Period size: 86 Copynumber: 2.1 Consensus size: 86
17475 ATTAAGTTGC
17485 TTTCTTGTTTCTTCCCCATAGAAAATGACGACAAAGGTATCTTATCATAGTATATTTATTATATT
1 TTTCTTGTTTCTTCCCCATAGAAAATGACGACAAAGGTATCTTATCATAGTATATTTATTATATT
*
17550 AAATTCTACATGATGATAGTG
66 AAATTCTACATGATGACAGTG
17571 TTTCTTGTTTCTTCCCCATAGAAAATGACGACAAAGGTATCTTATCATAGTATATTTATTATATT
1 TTTCTTGTTTCTTCCCCATAGAAAATGACGACAAAGGTATCTTATCATAGTATATTTATTATATT
17636 AAATTCTACATGATGACAGTG
66 AAATTCTACATGATGACAGTG
*
17657 TTTTTTGTT
1 TTTCTTGTT
17666 CTTTAGTTGG
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
86 93 1.00
ACGTcount: A:0.31, C:0.14, G:0.13, T:0.43
Consensus pattern (86 bp):
TTTCTTGTTTCTTCCCCATAGAAAATGACGACAAAGGTATCTTATCATAGTATATTTATTATATT
AAATTCTACATGATGACAGTG
Found at i:19199 original size:394 final size:391
Alignment explanation
Indices: 18426--19377 Score: 1357
Period size: 394 Copynumber: 2.5 Consensus size: 391
18416 GGAGTGATAA
* * * *
18426 AAAAACTAATTTATTAAGTTTAGTGGGAAAATTGAAAACTTTTAAGGTTCAATGAACAAAATAAG
1 AAAAACCAATGTATTAAGTTTAGTGAGAAAATTGAAAACTTTTAAGGTTCAGTGAACAAAATAAG
*
18491 AGAGAAAATAAAATTTAGTGATGACATTTGTAATTTACAC---AAAATATAATATCCACTGGCAT
66 AGAG--AATAAAATTTAGTGATGAAATTTGTAATTTACACTTAAAAATATAATATCCACTGGCAT
*
18553 ATGATATAGATTTATATAATATTTCAAGCCTACCACAATTAAGATATATATATTATTCCTTGTAA
129 ATGATATAGATTTATATAATATTTCAAACCTACCACAATTAAGATATATATATTATTCCTTGTAA
*
18618 TAATATTTCAAGCCTACCACAATTGAATATATAATAGATAAAAGTCTATTCCCTTACAGTTCAAG
194 TAATATTTCAAGCCTACCACAATTGAATATATAATAGATAAAAGTCTACTCCCTTACAGTTCAAG
* * *
18683 TATGTTATGATTCAAAGAACTGTGCTAGTCAAATGCGAAGACGGGTAAAATAACAATCTACAGCC
259 TATGTTACGATTCAAAGAACTGTGCTAGTCAAATGCGAAGACAGGTAAAATAACAATCTACAACC
* * * * * *
18748 TCTATCATTATTCTCTTATGTCCTGTTACTATGTAGTCCACTCATAAGCAAAAGCTACCTGCATT
324 TCTAACATTATTCTCTTATGTCCCGTTACTATGTAATCCACTCATAAGCAAAAGCTACATACAAT
18813 GAT
389 GAT
* * * *
18816 GAAAATCAATGTATTAAGTTTAGTGAGAAAATTGAAAATTTTTAAAGTTCAGTGAACAAAATAAG
1 AAAAACCAATGTATTAAGTTTAGTGAGAAAATTGAAAACTTTTAAGGTTCAGTGAACAAAATAAG
* *
18881 AGAGAATAAAATTTAGTGATGAAATTTGTAATTTACACTTAAAACATTTTTAATATCCACTGGCG
66 AGAGAATAAAATTTAGTGATGAAATTTGTAATTTACACTTAAAA-A--TATAATATCCACTGGCA
*
18946 TATGATATAGATTTATATAATATTTCAAACCTACCACTATTAAGAAATATATATATTATTCCTTG
128 TATGATATAGATTTATATAATATTTCAAACCTACCACAATTAAG--ATATATATATTATTCCTTG
* *
19011 TAATAATATTTCAAGCCTACCACAATTGAATGTATAATAGATACAAGTCTACTCCCTTACAGTTC
191 TAATAATATTTCAAGCCTACCACAATTGAATATATAATAGATAAAAGTCTACTCCCTTACAGTTC
* * *
19076 AAGTATGTTACGATTCAAATAAGTGTG-TTGTCAAATGCGAAGACAGGTAAAATAAC-ATCTACA
256 AAGTATGTTACGATTCAAAGAACTGTGCTAGTCAAATGCGAAGACAGGTAAAATAACAATCTACA
* * * * *
19139 ACTTCTAACATTCTTCTCTTTTGTCCCGTTATTATGTAATCCACTCATAAGCATAAGCTACATAC
321 ACCTCTAACATTATTCTCTTATGTCCCGTTACTATGTAATCCACTCATAAGCAAAAGCTACATAC
19204 AATGAT
386 AATGAT
* *
19210 AAAAACCAATGTATTAAGTTTAGTGAGAAAATTAAAAACTTTTAAGGTTCAGTGAATAAAAT-A-
1 AAAAACCAATGTATTAAGTTTAGTGAGAAAATTGAAAACTTTTAAGGTTCAGTGAACAAAATAAG
* *
19273 AGAGAATAAAATTTAATGATAAAATTTGTAATTTACACTT-AAAATAT-A-AT--A-T--C---T
66 AGAGAATAAAATTTAGTGATGAAATTTGTAATTTACACTTAAAAATATAATATCCACTGGCATAT
*
19327 GATATAGATTTATATAATATTTCAAGA-ATACCACAATTAAGATATATATAT
131 GATATAGATTTATATAATATTTCAA-ACCTACCACAATTAAGATATATATAT
19378 CAGTGAATAA
Statistics
Matches: 509, Mismatches: 44, Indels: 32
0.87 0.08 0.05
Matches are distributed among these distances:
376 10 0.02
378 38 0.07
379 1 0.00
381 1 0.00
383 1 0.00
384 1 0.00
386 2 0.00
387 1 0.00
388 35 0.07
390 62 0.12
391 6 0.01
392 39 0.08
393 1 0.00
394 179 0.35
395 27 0.05
396 105 0.21
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.34
Consensus pattern (391 bp):
AAAAACCAATGTATTAAGTTTAGTGAGAAAATTGAAAACTTTTAAGGTTCAGTGAACAAAATAAG
AGAGAATAAAATTTAGTGATGAAATTTGTAATTTACACTTAAAAATATAATATCCACTGGCATAT
GATATAGATTTATATAATATTTCAAACCTACCACAATTAAGATATATATATTATTCCTTGTAATA
ATATTTCAAGCCTACCACAATTGAATATATAATAGATAAAAGTCTACTCCCTTACAGTTCAAGTA
TGTTACGATTCAAAGAACTGTGCTAGTCAAATGCGAAGACAGGTAAAATAACAATCTACAACCTC
TAACATTATTCTCTTATGTCCCGTTACTATGTAATCCACTCATAAGCAAAAGCTACATACAATGA
T
Found at i:19469 original size:119 final size:119
Alignment explanation
Indices: 19258--19494 Score: 456
Period size: 119 Copynumber: 2.0 Consensus size: 119
19248 CTTTTAAGGT
19258 TCAGTGAATAAAATAAGAGAATAAAATTTAATGATAAAATTTGTAATTTACACTTAAAATATAAT
1 TCAGTGAATAAAATAAGAGAATAAAATTTAATGATAAAATTTGTAATTTACACTTAAAATATAAT
19323 ATCTGATATAGATTTATATAATATTTCAAGAATACCACAATTAAGATATATATA
66 ATCTGATATAGATTTATATAATATTTCAAGAATACCACAATTAAGATATATATA
*
19377 TCAGTGAATAAAATAAGAGAATAAAATTTAATGATGAAATTTGTAATTTACACTTAAAATATAAT
1 TCAGTGAATAAAATAAGAGAATAAAATTTAATGATAAAATTTGTAATTTACACTTAAAATATAAT
*
19442 ATCTGATATAGATTTATATAATATTTCAAGAATACCACAATTAATATATATAT
66 ATCTGATATAGATTTATATAATATTTCAAGAATACCACAATTAAGATATATAT
19495 GTAGTAATAA
Statistics
Matches: 116, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
119 116 1.00
ACGTcount: A:0.49, C:0.07, G:0.08, T:0.36
Consensus pattern (119 bp):
TCAGTGAATAAAATAAGAGAATAAAATTTAATGATAAAATTTGTAATTTACACTTAAAATATAAT
ATCTGATATAGATTTATATAATATTTCAAGAATACCACAATTAAGATATATATA
Found at i:21918 original size:23 final size:23
Alignment explanation
Indices: 21889--21946 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
21879 ATAAAACTAA
21889 AAATAATAATATTAGTAATATAT
1 AAATAATAATATTAGTAATATAT
* *
21912 AAATAATAATATTATTATTATAT
1 AAATAATAATATTAGTAATATAT
21935 AATATAATAATA
1 AA-ATAATAATA
21947 CTATATAAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 23 0.72
24 9 0.28
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (23 bp):
AAATAATAATATTAGTAATATAT
Found at i:22938 original size:15 final size:15
Alignment explanation
Indices: 22918--22946 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
22908 GCTAGATGGG
22918 CGGATGCGGGGCGGA
1 CGGATGCGGGGCGGA
22933 CGGATGCGGGGCGG
1 CGGATGCGGGGCGG
22947 GTAATGACTC
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:0.10, C:0.21, G:0.62, T:0.07
Consensus pattern (15 bp):
CGGATGCGGGGCGGA
Found at i:26179 original size:18 final size:18
Alignment explanation
Indices: 26152--26199 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
26142 TAAATCACAC
26152 ATAT-TTATATGTTATAT
1 ATATATTATATGTTATAT
* *
26169 ATATATTATATATTGTAT
1 ATATATTATATGTTATAT
*
26187 AAATATTAT-TGTT
1 ATATATTATATGTT
26200 TTAGTAAACT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
17 7 0.27
18 19 0.73
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (18 bp):
ATATATTATATGTTATAT
Found at i:27426 original size:3 final size:3
Alignment explanation
Indices: 27418--27476 Score: 50
Period size: 3 Copynumber: 19.7 Consensus size: 3
27408 TTTACCATTT
* **
27418 TTA TTA TTA TTA TTA TTA TTA TTC TT- TATA TTA TCC TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
*
27462 TCTA TTA TTA CTA TT
1 T-TA TTA TTA TTA TT
27477 TTTTTATTTA
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
2 2 0.04
3 41 0.91
4 2 0.04
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:27449 original size:18 final size:18
Alignment explanation
Indices: 27418--27476 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
27408 TTTACCATTT
27418 TTATTA-TTATTATTATTA
1 TTATTATTTA-TATTATTA
* **
27436 TTATTCTTTATATTATCC
1 TTATTATTTATATTATTA
*
27454 TTATTATTTCTATTATTA
1 TTATTATTTATATTATTA
*
27472 CTATT
1 TTATT
27477 TTTTTATTTA
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
18 29 0.91
19 3 0.09
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.64
Consensus pattern (18 bp):
TTATTATTTATATTATTA
Found at i:29104 original size:10 final size:10
Alignment explanation
Indices: 29091--29122 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
29081 TTATTTCTTG
29091 TTATTTTTAT
1 TTATTTTTAT
*
29101 TTATTTTCAT
1 TTATTTTTAT
29111 TTATTTTTAT
1 TTATTTTTAT
29121 TT
1 TT
29123 TACTAACCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (10 bp):
TTATTTTTAT
Found at i:39508 original size:105 final size:105
Alignment explanation
Indices: 39326--39996 Score: 1189
Period size: 105 Copynumber: 6.4 Consensus size: 105
39316 AGGTTTTACC
39326 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
39391 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
39431 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
39496 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
39536 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
39601 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
39641 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
39706 ACCAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
39746 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
39811 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
* * *
39851 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGCTCAACTTCACA
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* * ** * * *
39916 ACGAAGGGGCGGCTGACTGTCAACAAACAATTTCCCAGTTC
66 ACGAAGGGACCGCTGGTTGTCAACAAAC-ATTTCTCAATTT
* ** *
39957 CAGAACCAATTTCAACTTCACGGCGGAGGATATTGGACTC
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
39997 GGAACAAGGC
Statistics
Matches: 547, Mismatches: 18, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
105 503 0.92
106 44 0.08
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (105 bp):
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
Found at i:40527 original size:18 final size:18
Alignment explanation
Indices: 40500--40547 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
40490 TAAATCACAC
40500 ATAT-TTATATGTTATAT
1 ATATATTATATGTTATAT
* *
40517 ATATATTATATATTGTAT
1 ATATATTATATGTTATAT
*
40535 AAATATTAT-TGTT
1 ATATATTATATGTT
40548 TTAGTAAACT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
17 7 0.27
18 19 0.73
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (18 bp):
ATATATTATATGTTATAT
Found at i:41702 original size:3 final size:3
Alignment explanation
Indices: 41678--41725 Score: 53
Period size: 3 Copynumber: 15.3 Consensus size: 3
41668 ATATTACGTT
*
41678 TTA TTA -TA TATA TATA TATA TTA TTA TTG TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA T-TA T-TA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA
41725 T
1 T
41726 ACGTATATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
2 2 0.05
3 28 0.68
4 11 0.27
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:41807 original size:18 final size:17
Alignment explanation
Indices: 41776--41837 Score: 61
Period size: 18 Copynumber: 3.5 Consensus size: 17
41766 TTTACCATTT
41776 TTATTTTTATTATTATTA
1 TTATTTTTA-TATTATTA
**
41794 TTATTCTTTATATTATCC
1 TTATT-TTTATATTATTA
*
41812 TTATTATTTCTATTATTA
1 TTATT-TTTATATTATTA
*
41830 CTATTTTT
1 TTATTTTT
41838 TTTATTTATT
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
17 3 0.08
18 29 0.81
19 4 0.11
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (17 bp):
TTATTTTTATATTATTA
Found at i:45079 original size:3 final size:3
Alignment explanation
Indices: 45071--45095 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
45061 TGCTTAATTC
45071 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
45096 TACTAACAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:49413 original size:23 final size:22
Alignment explanation
Indices: 49373--49417 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
49363 TTCATGTCTT
*
49373 TTTTTCGAACAGTTTTTTTTTC
1 TTTTTCGAACAGTATTTTTTTC
*
49395 TTTTTCGAACTGCTATTTTTTTC
1 TTTTTCGAACAG-TATTTTTTTC
49418 AACATTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.13, C:0.16, G:0.09, T:0.62
Consensus pattern (22 bp):
TTTTTCGAACAGTATTTTTTTC
Found at i:56870 original size:32 final size:32
Alignment explanation
Indices: 56829--56900 Score: 99
Period size: 32 Copynumber: 2.2 Consensus size: 32
56819 TAAGGTAACC
* *
56829 ATTGGGTAGGCTCTGAGGCCCCAAGAAACTTT
1 ATTGGGTAGGCTCTCAGGCCCCAAGAAACTCT
* *
56861 ATTGGGTAGGCTCTCAGGCCCTAAGACACTCT
1 ATTGGGTAGGCTCTCAGGCCCCAAGAAACTCT
*
56893 CTTGGGTA
1 ATTGGGTA
56901 AATCATGAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.26
Consensus pattern (32 bp):
ATTGGGTAGGCTCTCAGGCCCCAAGAAACTCT
Found at i:56978 original size:24 final size:23
Alignment explanation
Indices: 56947--56992 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
56937 ATTCATGTGA
*
56947 TTTAAATA-ACTACATGGATCATT
1 TTTAAATATACTAC-TAGATCATT
56970 TTTACAATATACTACTAGATCAT
1 TTTA-AATATACTACTAGATCAT
56993 GATTTTGATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 4 0.20
24 11 0.55
25 5 0.25
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (23 bp):
TTTAAATATACTACTAGATCATT
Found at i:60611 original size:20 final size:20
Alignment explanation
Indices: 60586--60659 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
60576 TTTTCCCAAT
*
60586 TCGCAATGCGAATAAGTAAA
1 TCGCAACGCGAATAAGTAAA
** *
60606 TCGCAACGCGAATTGGGAAA
1 TCGCAACGCGAATAAGTAAA
*
60626 TTCGCAATGCGAATAAGTAAA
1 -TCGCAACGCGAATAAGTAAA
60647 TCGCAACGCGAAT
1 TCGCAACGCGAAT
60660 TGGGAAAATC
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.39, C:0.19, G:0.23, T:0.19
Consensus pattern (20 bp):
TCGCAACGCGAATAAGTAAA
Found at i:60628 original size:41 final size:41
Alignment explanation
Indices: 60583--60677 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 41
60573 CGATTTTCCC
60583 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
60624 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
*
60665 AAATC-CAATGCGA
1 AATTCGCAATGCGA
60678 TACTGACTAT
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
40 8 0.15
41 45 0.85
ACGTcount: A:0.40, C:0.18, G:0.23, T:0.19
Consensus pattern (41 bp):
AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
Found at i:60677 original size:20 final size:21
Alignment explanation
Indices: 60603--60677 Score: 82
Period size: 20 Copynumber: 3.7 Consensus size: 21
60593 GCGAATAAGT
60603 AAATCGCAACGCGAATTGGGA
1 AAATCGCAACGCGAATTGGGA
* * ** *
60624 AATTCGCAATGCGAA-TAAGT
1 AAATCGCAACGCGAATTGGGA
60644 AAATCGCAACGCGAATTGGGA
1 AAATCGCAACGCGAATTGGGA
*
60665 AAATC-CAATGCGA
1 AAATCGCAACGCGA
60678 TACTGACTAT
Statistics
Matches: 42, Mismatches: 11, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
20 22 0.52
21 20 0.48
ACGTcount: A:0.40, C:0.19, G:0.24, T:0.17
Consensus pattern (21 bp):
AAATCGCAACGCGAATTGGGA
Found at i:60693 original size:20 final size:20
Alignment explanation
Indices: 60674--60759 Score: 73
Period size: 20 Copynumber: 4.2 Consensus size: 20
60664 AAAATCCAAT
*
60674 GCGATACTGACTATCGCAAT
1 GCGATACTGACTATCGCAAC
* * **
60694 GCGATAATAAAAAATCGCAAC
1 GCGATACT-GACTATCGCAAC
* * *
60715 GAGATACTTACTTTCGCAAC
1 GCGATACTGACTATCGCAAC
* *
60735 ACGATACTGACTTTCGCAAC
1 GCGATACTGACTATCGCAAC
60755 GCGAT
1 GCGAT
60760 TTACTTAGCG
Statistics
Matches: 50, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
20 36 0.72
21 14 0.28
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.23
Consensus pattern (20 bp):
GCGATACTGACTATCGCAAC
Found at i:61315 original size:19 final size:19
Alignment explanation
Indices: 61291--61335 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
61281 GCAACGAGAT
*
61291 AATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAACAAA
*
61310 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACAAA
61329 AATCGCA
1 AATCGCA
61336 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:0.49, C:0.27, G:0.16, T:0.09
Consensus pattern (19 bp):
AATCGCAACGCGAAACAAA
Found at i:61382 original size:33 final size:33
Alignment explanation
Indices: 61345--61432 Score: 140
Period size: 33 Copynumber: 2.6 Consensus size: 33
61335 ATTGCGATTT
* *
61345 TCATTTCGCGTTGCGATTGTCTGGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
*
61378 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
61411 TCATTTCCGCGTTGCGATTCTC
1 TCATTT-CGCGTTGCGATTCTC
61433 ATTATCTCGT
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 36 0.71
34 15 0.29
ACGTcount: A:0.11, C:0.25, G:0.25, T:0.39
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
Found at i:61434 original size:20 final size:20
Alignment explanation
Indices: 61400--61457 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
61390 GCGATTCTCT
**
61400 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATTCTCATTTCCG
*
61420 CGTTGCGATTCTCATTAT-CT
1 CGTTGCGATTCTCATT-TCCG
*
61440 CGTTGCGATTTTCATTTC
1 CGTTGCGATTCTCATTTC
61458 AACCAAAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTCTCATTTCCG
Found at i:62791 original size:21 final size:20
Alignment explanation
Indices: 62720--62792 Score: 62
Period size: 21 Copynumber: 3.6 Consensus size: 20
62710 CTCCACTTCG
62720 AGAGCCATCACCTCAC--CC
1 AGAGCCATCACCTCACAACC
*
62738 AGAGCCATCACCTGATCAACC
1 AGAGCCATCACCTCA-CAACC
* * *
62759 CGA-CTATACACCTCTACAACG
1 AGAGCCAT-CACCTC-ACAACC
62780 AGAGCCATCACCT
1 AGAGCCATCACCT
62793 ATCCCGTCAC
Statistics
Matches: 42, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
18 14 0.33
19 1 0.02
20 3 0.07
21 20 0.48
22 4 0.10
ACGTcount: A:0.32, C:0.41, G:0.12, T:0.15
Consensus pattern (20 bp):
AGAGCCATCACCTCACAACC
Found at i:63514 original size:42 final size:42
Alignment explanation
Indices: 63454--63546 Score: 114
Period size: 42 Copynumber: 2.2 Consensus size: 42
63444 GCCCGACTCG
* * *
63454 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * *
63496 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* *
63538 ACTGTCATC
1 CCTATCATC
63547 GTTGAAGAGG
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.22, C:0.39, G:0.16, T:0.24
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
Found at i:64948 original size:14 final size:14
Alignment explanation
Indices: 64929--64964 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
64919 ATTGTTTAAT
64929 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
64943 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
64957 TGATTTGT
1 TGATTTGT
64965 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:65165 original size:19 final size:19
Alignment explanation
Indices: 65143--65259 Score: 119
Period size: 19 Copynumber: 6.7 Consensus size: 19
65133 CGAAATTAAA
*
65143 TTCGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
65162 TTCGCATTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
* *
65181 TTCGCATTGTGA--TTC-C
1 TTCGCATTGCGATTTTCAT
*
65197 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
65214 TTCGCATTGCGA--TTC-T
1 TTCGCATTGCGATTTTCAT
*
65230 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
65247 TTCGCATTGCGAT
1 TTCGCATTGCGAT
65260 AGTAATTTCC
Statistics
Matches: 79, Mismatches: 9, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
14 11 0.14
16 13 0.16
17 13 0.16
19 42 0.53
ACGTcount: A:0.13, C:0.23, G:0.19, T:0.45
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:65210 original size:33 final size:33
Alignment explanation
Indices: 65168--65259 Score: 166
Period size: 33 Copynumber: 2.8 Consensus size: 33
65158 TCATTTCGCA
*
65168 TTGCGATTTTCATTTCGCATTGTGATTCCCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCCCTCG
*
65201 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCCCTCG
65234 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
65260 AGTAATTTCC
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.13, C:0.23, G:0.18, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCCCTCG
Found at i:65257 original size:52 final size:51
Alignment explanation
Indices: 65143--65259 Score: 137
Period size: 52 Copynumber: 2.3 Consensus size: 51
65133 CGAAATTAAA
* *
65143 TTCGCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGTGAT
1 TTCGCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTGCGCATTGTCAT
* * * *
65194 TCCCTCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCG-ATTTTCAT
1 T-TCGCGTTGCGATTTTCATTTCGCATTGCGATT-T-TCATTGCGCATTGTCAT
*
65247 TTCGCATTGCGAT
1 TTCGCGTTGCGAT
65260 AGTAATTTCC
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
51 1 0.02
52 39 0.72
53 8 0.15
54 6 0.11
ACGTcount: A:0.13, C:0.23, G:0.19, T:0.45
Consensus pattern (51 bp):
TTCGCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTGCGCATTGTCAT
Found at i:65356 original size:20 final size:19
Alignment explanation
Indices: 65327--65369 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
65317 GGAACAGATC
*
65327 ATAGCAATTTTCTCGTTGCG
1 ATAGCAA-TTTCGCGTTGCG
*
65347 ATAGCCATTTCGCGTTGCG
1 ATAGCAATTTCGCGTTGCG
65366 ATAG
1 ATAG
65370 TCTGTTTTGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.35
Consensus pattern (19 bp):
ATAGCAATTTCGCGTTGCG
Found at i:65484 original size:14 final size:13
Alignment explanation
Indices: 65455--65489 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
65445 CATCAATTAA
65455 ACAAATCACATTT
1 ACAAATCACATTT
*
65468 ACAAATCATCTTTT
1 ACAAATCA-CATTT
65482 ACAAATCA
1 ACAAATCA
65490 ATTAAACAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (13 bp):
ACAAATCACATTT
Found at i:67381 original size:20 final size:19
Alignment explanation
Indices: 67346--67412 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
67336 GAAACTTAAA
67346 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
*
67365 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* **
67385 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
67404 ATCGCAACG
1 ATCGCAACG
67413 ACAAAATCGC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 24 0.59
20 17 0.41
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:67420 original size:14 final size:14
Alignment explanation
Indices: 67401--67458 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
67391 ATGCGAAATG
67401 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
67415 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
67431 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
67447 AAAATCGCAACG
1 AAAATCGCAACG
67459 CGAAACAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:67443 original size:32 final size:32
Alignment explanation
Indices: 67385--67473 Score: 142
Period size: 32 Copynumber: 2.8 Consensus size: 32
67375 GGAAATGGCT
*
67385 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
67418 ATCGCAACGCGAAATGAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAATCGCAACGACAAA
**
67450 ATCGCAACGCGAAACAAAATCGCA
1 ATCGCAACGCGAAATGAAATCGCA
67474 TTGCGATTTT
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
32 38 0.72
33 15 0.28
ACGTcount: A:0.47, C:0.25, G:0.18, T:0.10
Consensus pattern (32 bp):
ATCGCAACGCGAAATGAAATCGCAACGACAAA
Found at i:67479 original size:18 final size:18
Alignment explanation
Indices: 67385--67473 Score: 77
Period size: 18 Copynumber: 5.3 Consensus size: 18
67375 GGAAATGGCT
* *
67385 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAA-CAAA
67404 ATCGCAA--CG--ACAAA
1 ATCGCAACGCGAAACAAA
**
67418 ATCGCAACGCGAAATGAA
1 ATCGCAACGCGAAACAAA
67436 ATCGCAA--CG--ACAAA
1 ATCGCAACGCGAAACAAA
67450 ATCGCAACGCGAAACAAA
1 ATCGCAACGCGAAACAAA
67468 ATCGCA
1 ATCGCA
67474 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 5, Indels: 17
0.72 0.06 0.22
Matches are distributed among these distances:
14 20 0.35
15 1 0.02
16 6 0.11
17 2 0.04
18 21 0.37
19 7 0.12
ACGTcount: A:0.47, C:0.25, G:0.18, T:0.10
Consensus pattern (18 bp):
ATCGCAACGCGAAACAAA
Found at i:67496 original size:19 final size:18
Alignment explanation
Indices: 67469--67532 Score: 66
Period size: 19 Copynumber: 3.8 Consensus size: 18
67459 CGAAACAAAA
*
67469 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGA-TTTCATT
*
67488 TCGCGTTGCGATTT--TG
1 TCGCGTTGCGATTTCATT
67504 T--CGTTGCGA-TTCATT
1 TCGCGTTGCGATTTCATT
67519 TCGCGTTGCGATTT
1 TCGCGTTGCGATTT
67533 GTCGTTACGA
Statistics
Matches: 37, Mismatches: 3, Indels: 11
0.73 0.06 0.22
Matches are distributed among these distances:
13 2 0.05
14 8 0.22
15 2 0.05
16 2 0.05
17 8 0.22
18 5 0.14
19 10 0.27
ACGTcount: A:0.11, C:0.20, G:0.23, T:0.45
Consensus pattern (18 bp):
TCGCGTTGCGATTTCATT
Found at i:67510 original size:14 final size:14
Alignment explanation
Indices: 67491--67546 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
67481 TTTCATTTCG
67491 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
67505 CGTTGCGATTCATT-T
1 CGTTGCGATT--TTGT
67520 CGCGTTGCGA-TTTGT
1 --CGTTGCGATTTTGT
*
67535 CGTTACGATTTT
1 CGTTGCGATTTT
67547 CATTTCGCAT
Statistics
Matches: 35, Mismatches: 1, Indels: 12
0.73 0.02 0.25
Matches are distributed among these distances:
13 7 0.20
14 15 0.43
15 2 0.06
16 3 0.09
17 8 0.23
ACGTcount: A:0.11, C:0.18, G:0.25, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:67527 original size:17 final size:17
Alignment explanation
Indices: 67482--67531 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
67472 CATTGCGATT
67482 TTCATTTCGCGTTGCGA
1 TTCATTTCGCGTTGCGA
67499 -T--TTT-GTCGTTGCGA
1 TTCATTTCG-CGTTGCGA
67513 TTCATTTCGCGTTGCGA
1 TTCATTTCGCGTTGCGA
67530 TT
1 TT
67532 TGTCGTTACG
Statistics
Matches: 28, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
13 1 0.04
14 11 0.39
15 1 0.04
16 1 0.04
17 13 0.46
18 1 0.04
ACGTcount: A:0.10, C:0.20, G:0.24, T:0.46
Consensus pattern (17 bp):
TTCATTTCGCGTTGCGA
Found at i:67554 original size:32 final size:32
Alignment explanation
Indices: 67477--67562 Score: 131
Period size: 31 Copynumber: 2.7 Consensus size: 32
67467 AATCGCATTG
*
67477 CGATTTTCATTTCGCGTTGCGATTTTGTCGTTG
1 CGATTTTCATTTCGCGTTGCGA-TTTGTCGTTA
67510 CGA--TTCATTTCGCGTTGCGATTTGTCGTTA
1 CGATTTTCATTTCGCGTTGCGATTTGTCGTTA
*
67540 CGATTTTCATTTCGCATTGCGAT
1 CGATTTTCATTTCGCGTTGCGAT
67563 AGCCATTTCC
Statistics
Matches: 49, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
30 12 0.24
31 17 0.35
32 17 0.35
33 3 0.06
ACGTcount: A:0.13, C:0.20, G:0.22, T:0.45
Consensus pattern (32 bp):
CGATTTTCATTTCGCGTTGCGATTTGTCGTTA
Found at i:67581 original size:20 final size:19
Alignment explanation
Indices: 67547--67601 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
67537 TTACGATTTT
*
67547 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
67566 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
67586 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
67602 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:68099 original size:18 final size:18
Alignment explanation
Indices: 68073--68117 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
68063 GTCGATCAGA
*
68073 TGATGGCTCTAGGTGAGG
1 TGATGGCTCTAGGCGAGG
* *
68091 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTAGGCGAGG
68109 TGATGGCTC
1 TGATGGCTC
68118 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:69450 original size:20 final size:20
Alignment explanation
Indices: 69425--69462 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
69415 AATAGTTTCT
69425 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
**
69445 GAAAATGACTATCGCAAC
1 GAAAATGAAAATCGCAAC
69463 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:69748 original size:22 final size:22
Alignment explanation
Indices: 69723--69766 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
69713 GATTTAGATA
69723 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
69745 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
69767 TGAGAGTGAG
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
Done.