Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_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: 21326069
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 36 of 89
Found at i:7739055 original size:14 final size:14
Alignment explanation
Indices: 7739036--7739069 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
7739026 AAGTGTTTTA
7739036 TATCTTCATATTTC
1 TATCTTCATATTTC
7739050 TATCTTCATATTTC
1 TATCTTCATATTTC
*
7739064 TTTCTT
1 TATCTT
7739070 AATTTTCGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.18, C:0.21, G:0.00, T:0.62
Consensus pattern (14 bp):
TATCTTCATATTTC
Found at i:7739243 original size:30 final size:32
Alignment explanation
Indices: 7739174--7739251 Score: 97
Period size: 32 Copynumber: 2.5 Consensus size: 32
7739164 TTCTATTGTA
* *
7739174 ACATGTGATATGTGAACATAAGAGATTAAGTG
1 ACATGAGATATGTGAACATAAGAGAATAAGTG
* *
7739206 ACATGAGATATGTGACCATATGAGAAT-A-TG
1 ACATGAGATATGTGAACATAAGAGAATAAGTG
*
7739236 GCATGAGATATGTGAA
1 ACATGAGATATGTGAA
7739252 TATGTGAATT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
30 16 0.40
31 1 0.03
32 23 0.57
ACGTcount: A:0.40, C:0.08, G:0.26, T:0.27
Consensus pattern (32 bp):
ACATGAGATATGTGAACATAAGAGAATAAGTG
Found at i:7746929 original size:2 final size:2
Alignment explanation
Indices: 7746922--7746949 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7746912 CATCCCATGG
7746922 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7746950 TGGTAGAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7749829 original size:20 final size:21
Alignment explanation
Indices: 7749796--7749835 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
7749786 AAAGGTAACA
7749796 CACTTCTAACTTATT-TATAC
1 CACTTCTAACTTATTGTATAC
* *
7749816 CACTTGTAAGTTATTGTATA
1 CACTTCTAACTTATTGTATA
7749836 TGATGGTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.30, C:0.17, G:0.07, T:0.45
Consensus pattern (21 bp):
CACTTCTAACTTATTGTATAC
Found at i:7750065 original size:45 final size:45
Alignment explanation
Indices: 7750000--7750095 Score: 174
Period size: 45 Copynumber: 2.1 Consensus size: 45
7749990 GGGCTTTGGA
*
7750000 CTTGAGAGGTAATGACTTTCACATGTAAAATATAGCAACTCTGGG
1 CTTGAGAGGTAATGACTTTCACATGTAAAATAAAGCAACTCTGGG
*
7750045 TTTGAGAGGTAATGACTTTCACATGTAAAATAAAGCAACTCTGGG
1 CTTGAGAGGTAATGACTTTCACATGTAAAATAAAGCAACTCTGGG
7750090 CTTGAG
1 CTTGAG
7750096 TATCGATACT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (45 bp):
CTTGAGAGGTAATGACTTTCACATGTAAAATAAAGCAACTCTGGG
Found at i:7750456 original size:21 final size:23
Alignment explanation
Indices: 7750405--7750458 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
7750395 ACCCATAATG
7750405 GTATCGATAC-CTCATAAGAGAA
1 GTATCGATACTCTCATAAGAGAA
*
7750427 GTATTGATACTCT-ATATAG-G-A
1 GTATCGATACTCTCATA-AGAGAA
7750448 GTATCGATACT
1 GTATCGATACT
7750459 ATAAGCCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
21 11 0.39
22 13 0.46
23 4 0.14
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (23 bp):
GTATCGATACTCTCATAAGAGAA
Found at i:7757367 original size:21 final size:21
Alignment explanation
Indices: 7757334--7757374 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
7757324 TCGATACACA
7757334 AAAGAATGAGTATAGATACTC
1 AAAGAATGAGTATAGATACTC
* * *
7757355 AAAGTATGGGTATTGATACT
1 AAAGAATGAGTATAGATACT
7757375 GGATTATTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.29
Consensus pattern (21 bp):
AAAGAATGAGTATAGATACTC
Found at i:7763108 original size:18 final size:18
Alignment explanation
Indices: 7763055--7763101 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
7763045 TCTTCTTATT
*
7763055 TTTACTTTAATTACTTTTA
1 TTTA-TTTAATCACTTTTA
7763074 TTTATTTAATCACTTTTA
1 TTTATTTAATCACTTTTA
*
7763092 TTTTTTTAAT
1 TTTATTTAAT
7763102 ATCTTTTTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 22 0.85
19 4 0.15
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTATTTAATCACTTTTA
Found at i:7771348 original size:18 final size:18
Alignment explanation
Indices: 7771320--7771362 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
7771310 TCTTCTTATT
*
7771320 TTTACTTTAATTACTTTTA
1 TTTA-TTTAATCACTTTTA
*
7771339 TTTATTTAATCGCTTTTA
1 TTTATTTAATCACTTTTA
7771357 -TTATTT
1 TTTATTT
7771363 TAATATCTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 6 0.27
18 12 0.55
19 4 0.18
ACGTcount: A:0.23, C:0.09, G:0.02, T:0.65
Consensus pattern (18 bp):
TTTATTTAATCACTTTTA
Found at i:7774626 original size:11 final size:11
Alignment explanation
Indices: 7774610--7774635 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
7774600 CTCTCAAATA
7774610 AATGAACATCG
1 AATGAACATCG
7774621 AATGAACATCG
1 AATGAACATCG
7774632 AATG
1 AATG
7774636 CACTCTCAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.15, G:0.19, T:0.19
Consensus pattern (11 bp):
AATGAACATCG
Found at i:7778178 original size:36 final size:35
Alignment explanation
Indices: 7778130--7778237 Score: 137
Period size: 35 Copynumber: 3.1 Consensus size: 35
7778120 TAAGATACTA
*
7778130 CCTATAACATCACAATCTTCCATCACCAATTTCACG
1 CCTATAATATCACAATCTTCCATCACC-ATTTCACG
* *
7778166 CCTATAATATCACCATCTTCCATCACCATTGCACG
1 CCTATAATATCACAATCTTCCATCACCATTTCACG
* * *
7778201 TCTATATTATCATCAA-CTTCTATCACCATTTCACG
1 CCTATAATATCA-CAATCTTCCATCACCATTTCACG
7778236 CC
1 CC
7778238 CATATAACCA
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
35 35 0.56
36 27 0.44
ACGTcount: A:0.30, C:0.35, G:0.04, T:0.31
Consensus pattern (35 bp):
CCTATAATATCACAATCTTCCATCACCATTTCACG
Found at i:7778773 original size:18 final size:18
Alignment explanation
Indices: 7778750--7779007 Score: 327
Period size: 18 Copynumber: 14.3 Consensus size: 18
7778740 GGGTCTACAC
* *
7778750 GGTCCTTCGGGACATAGT
1 GGTCCTTCGGCACACAGT
*
7778768 GGTCCTTCGTCACACAGT
1 GGTCCTTCGGCACACAGT
*
7778786 GGTCCTTCAGCACACAGT
1 GGTCCTTCGGCACACAGT
* * *
7778804 GGTCCTTTGGCATAAAGT
1 GGTCCTTCGGCACACAGT
* *
7778822 GGTCCTTCAGTACACAGT
1 GGTCCTTCGGCACACAGT
*
7778840 GGTCTTTCGGCACACAGT
1 GGTCCTTCGGCACACAGT
* *
7778858 GCTCCTTCGGCACAAAGT
1 GGTCCTTCGGCACACAGT
*
7778876 GGTCCTTCGGCACAAAGT
1 GGTCCTTCGGCACACAGT
7778894 GGTCCTTCGGCACACAGT
1 GGTCCTTCGGCACACAGT
*
7778912 GGTCCTTCGGTACACAGT
1 GGTCCTTCGGCACACAGT
* *
7778930 GGTCCTTCGGGACATAGT
1 GGTCCTTCGGCACACAGT
*
7778948 GGTCCTTCGGGACACAGT
1 GGTCCTTCGGCACACAGT
* *
7778966 GGTCATTCGGGACACAGT
1 GGTCCTTCGGCACACAGT
* *
7778984 GGTCCTTCGGGACATAGT
1 GGTCCTTCGGCACACAGT
7779002 GGTCCT
1 GGTCCT
7779008 ACAAGACAAA
Statistics
Matches: 211, Mismatches: 29, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 211 1.00
ACGTcount: A:0.19, C:0.27, G:0.28, T:0.26
Consensus pattern (18 bp):
GGTCCTTCGGCACACAGT
Found at i:7782583 original size:20 final size:20
Alignment explanation
Indices: 7782558--7782595 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
7782548 CACTTGTTAA
7782558 AGAATGCATCGATACACTGT
1 AGAATGCATCGATACACTGT
* *
7782578 AGAATGTATCGATGCACT
1 AGAATGCATCGATACACT
7782596 TCAAGGGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.26
Consensus pattern (20 bp):
AGAATGCATCGATACACTGT
Found at i:7783410 original size:18 final size:18
Alignment explanation
Indices: 7783387--7783481 Score: 118
Period size: 18 Copynumber: 5.3 Consensus size: 18
7783377 GGTCTACGCA
*
7783387 GTCCTTCGGGACACAGTG
1 GTCCTTCGGCACACAGTG
*
7783405 GTCCTTTGGCACACAGTG
1 GTCCTTCGGCACACAGTG
* *
7783423 GTTCTTCAGCACACAGTG
1 GTCCTTCGGCACACAGTG
*
7783441 GTCCTTCGGTACACAGTG
1 GTCCTTCGGCACACAGTG
* * *
7783459 GTCATTCGGGACATAGTG
1 GTCCTTCGGCACACAGTG
7783477 GTCCT
1 GTCCT
7783482 ATGAGACAAA
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 65 1.00
ACGTcount: A:0.18, C:0.26, G:0.28, T:0.27
Consensus pattern (18 bp):
GTCCTTCGGCACACAGTG
Found at i:7807626 original size:24 final size:20
Alignment explanation
Indices: 7807599--7807656 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 20
7807589 GCATGGGTAG
7807599 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TG-T--AGAA
*
7807623 TGCATCGATACACTGTAGAA
1 TGCATCGATGCACTGTAGAA
*
7807643 TGTATCGATGCACT
1 TGCATCGATGCACT
7807657 TCAAGGGAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 16 0.52
22 1 0.03
23 2 0.06
24 12 0.39
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.28
Consensus pattern (20 bp):
TGCATCGATGCACTGTAGAA
Found at i:7808189 original size:2 final size:2
Alignment explanation
Indices: 7808130--7808169 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
7808120 GTATTTGCGG
7808130 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7808170 GAATAAGATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7809637 original size:36 final size:35
Alignment explanation
Indices: 7809590--7809701 Score: 125
Period size: 35 Copynumber: 3.2 Consensus size: 35
7809580 TAAGATACTA
* *
7809590 CCTATTACATCACCATCTTCCATCACTATTTTCACG
1 CCTATAACATCACCATCTTCCATCACCA-TTTCACG
* *
7809626 CCTATAACATCACCATCTTCCATTACCATTGCACG
1 CCTATAACATCACCATCTTCCATCACCATTTCACG
* ** * * *
7809661 ACTATATTATCATCACCTTCTATCACCATTTCACG
1 CCTATAACATCACCATCTTCCATCACCATTTCACG
7809696 CCTATA
1 CCTATA
7809702 TAACCACCAA
Statistics
Matches: 63, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
35 38 0.60
36 25 0.40
ACGTcount: A:0.28, C:0.35, G:0.04, T:0.34
Consensus pattern (35 bp):
CCTATAACATCACCATCTTCCATCACCATTTCACG
Found at i:7815294 original size:36 final size:35
Alignment explanation
Indices: 7815246--7815353 Score: 137
Period size: 35 Copynumber: 3.1 Consensus size: 35
7815236 TAAGATACTA
*
7815246 CCTATAACATCACAATCTTCCATCACCATTTTCACG
1 CCTATAATATCACAATCTTCCATCACCA-TTTCACG
* *
7815282 CCTATAATATCACCATCTTCCATCACCATTGCACG
1 CCTATAATATCACAATCTTCCATCACCATTTCACG
* * *
7815317 TCTATATTATCATCAA-CTTCTATCACCATTTCACG
1 CCTATAATATCA-CAATCTTCCATCACCATTTCACG
7815352 CC
1 CC
7815354 CATATAACCA
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
35 34 0.55
36 28 0.45
ACGTcount: A:0.29, C:0.35, G:0.04, T:0.32
Consensus pattern (35 bp):
CCTATAATATCACAATCTTCCATCACCATTTCACG
Found at i:7815889 original size:18 final size:18
Alignment explanation
Indices: 7815866--7816105 Score: 282
Period size: 18 Copynumber: 13.3 Consensus size: 18
7815856 GGGTCTACGC
* *
7815866 GGTCCTTCGGGACATAGT
1 GGTCCTTCGGCACACAGT
*
7815884 GGTCCTTCGTCACACAGT
1 GGTCCTTCGGCACACAGT
*
7815902 GGTCCTTCGGCACACAAT
1 GGTCCTTCGGCACACAGT
* * *
7815920 GGTCCTTTGGCATAAAGT
1 GGTCCTTCGGCACACAGT
* *
7815938 GGTCCTTCAGTACACAGT
1 GGTCCTTCGGCACACAGT
*
7815956 GGTCTTTCGGCACACAGT
1 GGTCCTTCGGCACACAGT
* * *
7815974 GCTACTTCGGCACAAAGT
1 GGTCCTTCGGCACACAGT
7815992 GGTCCTTCGGCACACAGT
1 GGTCCTTCGGCACACAGT
*
7816010 GGTCCTTCGGTACACAGT
1 GGTCCTTCGGCACACAGT
* *
7816028 GGTCCTTCGGGACATAGT
1 GGTCCTTCGGCACACAGT
*
7816046 GGTCCTTCGGGACACAGT
1 GGTCCTTCGGCACACAGT
* *
7816064 GGTCATTCGGGACACAGT
1 GGTCCTTCGGCACACAGT
* * *
7816082 GGTCCTTTGGGACATAGT
1 GGTCCTTCGGCACACAGT
7816100 GGTCCT
1 GGTCCT
7816106 ACAAGACAAA
Statistics
Matches: 190, Mismatches: 32, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 190 1.00
ACGTcount: A:0.19, C:0.26, G:0.28, T:0.27
Consensus pattern (18 bp):
GGTCCTTCGGCACACAGT
Found at i:7819672 original size:20 final size:20
Alignment explanation
Indices: 7819647--7819684 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
7819637 CACATGTTAA
7819647 AGAATGCATCGATACACTGT
1 AGAATGCATCGATACACTGT
* *
7819667 AGAATGTATCGATGCACT
1 AGAATGCATCGATACACT
7819685 TCAAGGGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.26
Consensus pattern (20 bp):
AGAATGCATCGATACACTGT
Found at i:7820499 original size:18 final size:18
Alignment explanation
Indices: 7820476--7820570 Score: 136
Period size: 18 Copynumber: 5.3 Consensus size: 18
7820466 GGTCTACGCA
*
7820476 GTCCTTCGGGACACAGTG
1 GTCCTTCGGCACACAGTG
7820494 GTCCTTCGGCACACAGTG
1 GTCCTTCGGCACACAGTG
* *
7820512 GTTCTTCAGCACACAGTG
1 GTCCTTCGGCACACAGTG
7820530 GTCCTTCGGCACACAGTG
1 GTCCTTCGGCACACAGTG
* * *
7820548 GTCATTCGGGACATAGTG
1 GTCCTTCGGCACACAGTG
7820566 GTCCT
1 GTCCT
7820571 ACGAGACAAA
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 68 1.00
ACGTcount: A:0.18, C:0.28, G:0.28, T:0.25
Consensus pattern (18 bp):
GTCCTTCGGCACACAGTG
Found at i:7824137 original size:24 final size:20
Alignment explanation
Indices: 7824110--7824166 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 20
7824100 GCATGGGTAG
7824110 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCACA-G-T--AGAA
*
7824134 TGCATCGATACACAGTAGAA
1 TGCATCGATGCACAGTAGAA
*
7824154 TGTATCGATGCAC
1 TGCATCGATGCAC
7824167 TTCAAAGGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 15 0.50
22 1 0.03
23 1 0.03
24 13 0.43
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (20 bp):
TGCATCGATGCACAGTAGAA
Found at i:7824706 original size:2 final size:2
Alignment explanation
Indices: 7824641--7824688 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
7824631 GTATTTGTGG
7824641 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7824683 AT AT AT
1 AT AT AT
7824689 GAATAAGATA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7825023 original size:18 final size:18
Alignment explanation
Indices: 7825002--7825063 Score: 70
Period size: 18 Copynumber: 3.4 Consensus size: 18
7824992 CGTGGTCTAC
7825002 GTGGTCCTTCGGGACACA
1 GTGGTCCTTCGGGACACA
* * *
7825020 GTGGTCATTCTGGCCACA
1 GTGGTCCTTCGGGACACA
* * *
7825038 GTGGTCCCTCGAGACATA
1 GTGGTCCTTCGGGACACA
7825056 GTGGTCCT
1 GTGGTCCT
7825064 ACGAGACAAT
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.16, C:0.27, G:0.31, T:0.26
Consensus pattern (18 bp):
GTGGTCCTTCGGGACACA
Found at i:7825068 original size:18 final size:18
Alignment explanation
Indices: 7825037--7825071 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
7825027 TTCTGGCCAC
7825037 AGTGGTCCCTCGAGACAT
1 AGTGGTCCCTCGAGACAT
7825055 AGTGGT-CCTACGAGACA
1 AGTGGTCCCT-CGAGACA
7825072 ATTCTACGCG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.26, C:0.26, G:0.29, T:0.20
Consensus pattern (18 bp):
AGTGGTCCCTCGAGACAT
Found at i:7828446 original size:2 final size:2
Alignment explanation
Indices: 7828439--7828463 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7828429 ATTTCATTGT
7828439 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 T
7828464 GTTTTTATGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7828941 original size:23 final size:24
Alignment explanation
Indices: 7828914--7829006 Score: 131
Period size: 23 Copynumber: 4.0 Consensus size: 24
7828904 AGTCGAGGGT
*
7828914 TCTATGTGG-CCTTTCGAGACAAA
1 TCTATGTGGTCCTTTCGGGACAAA
7828937 TCTATGTGGTCCTTT-GGGACAAA
1 TCTATGTGGTCCTTTCGGGACAAA
7828960 TCTATGTGGTCC-TTCGGGACAAA
1 TCTATGTGGTCCTTTCGGGACAAA
* *
7828983 CCTATGTGGTAC-TTCGGGACAAA
1 TCTATGTGGTCCTTTCGGGACAAA
7829006 T
1 T
7829007 ATGTGGCACT
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
22 2 0.03
23 57 0.89
24 5 0.08
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (24 bp):
TCTATGTGGTCCTTTCGGGACAAA
Found at i:7829011 original size:21 final size:22
Alignment explanation
Indices: 7828926--7829019 Score: 109
Period size: 23 Copynumber: 4.2 Consensus size: 22
7828916 TATGTGGCCT
* *
7828926 TTCGAGACAAATCTATGTGGTCC
1 TTCGGGACAAA-CTATGTGGTAC
* *
7828949 TTTGGGACAAATCTATGTGGTCC
1 TTCGGGACAAA-CTATGTGGTAC
7828972 TTCGGGACAAACCTATGTGGTAC
1 TTCGGGACAAA-CTATGTGGTAC
*
7828995 TTCGGGACAAA-TATGTGGCAC
1 TTCGGGACAAACTATGTGGTAC
7829016 TTCG
1 TTCG
7829020 ATGCAAATTA
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
21 13 0.20
23 52 0.80
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (22 bp):
TTCGGGACAAACTATGTGGTAC
Found at i:7829026 original size:21 final size:22
Alignment explanation
Indices: 7828916--7829033 Score: 93
Period size: 23 Copynumber: 5.3 Consensus size: 22
7828906 TCGAGGGTTC
*
7828916 TATGTGGC-CTTTCGAGACAAAT
1 TATGTGGCAC-TTCGGGACAAAT
*
7828938 CTATGTGGTC-CTTTGGGACAAAT
1 -TATGTGG-CACTTCGGGACAAAT
*
7828961 CTATGTGGTC-CTTCGGGACAAACC
1 -TATGTGG-CACTTCGGGACAAA-T
*
7828985 TATGTGGTACTTCGGGACAAA-
1 TATGTGGCACTTCGGGACAAAT
*
7829006 TATGTGGCACTTCGATG-CAAAT
1 TATGTGGCACTTCG-GGACAAAT
7829028 TATGTG
1 TATGTG
7829034 AGCAGTGGTG
Statistics
Matches: 83, Mismatches: 7, Indels: 11
0.82 0.07 0.11
Matches are distributed among these distances:
21 17 0.20
22 7 0.08
23 57 0.69
24 2 0.02
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (22 bp):
TATGTGGCACTTCGGGACAAAT
Found at i:7833640 original size:3 final size:3
Alignment explanation
Indices: 7833632--7833670 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
7833622 AACGGTTTGA
7833632 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
7833671 TCCGGTATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:7838546 original size:10 final size:10
Alignment explanation
Indices: 7838531--7838556 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
7838521 TCACACCAAA
7838531 TTCTCTCAAT
1 TTCTCTCAAT
7838541 TTCTCTCAAT
1 TTCTCTCAAT
7838551 TTCTCT
1 TTCTCT
7838557 AAAATACTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.15, C:0.31, G:0.00, T:0.54
Consensus pattern (10 bp):
TTCTCTCAAT
Found at i:7838640 original size:23 final size:22
Alignment explanation
Indices: 7838601--7838645 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
7838591 TTATTATATT
*
7838601 TTTAATATTTTTTATTTAATTTA
1 TTTAATATTTTTAATTT-ATTTA
7838624 TTTAAGTA-TTTTAATTTATTTA
1 TTTAA-TATTTTTAATTTATTTA
7838646 ATATTTTACT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 5 0.25
23 13 0.65
24 2 0.10
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (22 bp):
TTTAATATTTTTAATTTATTTA
Found at i:7838650 original size:17 final size:18
Alignment explanation
Indices: 7838615--7838653 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
7838605 ATATTTTTTA
7838615 TTTAATTTATTTAAGTAT
1 TTTAATTTATTTAAGTAT
7838633 TTTAATTTATTTAA-TAT
1 TTTAATTTATTTAAGTAT
7838650 TTTA
1 TTTA
7838654 CTTATATACT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (18 bp):
TTTAATTTATTTAAGTAT
Found at i:7844373 original size:78 final size:78
Alignment explanation
Indices: 7844244--7844413 Score: 304
Period size: 78 Copynumber: 2.2 Consensus size: 78
7844234 TGATTTTTCT
* **
7844244 TCTTCTTCTTTTTCTTTGAACCAGGTTGGTCGTTTAGATCAATTCTTCCTCACAAGTTGTCCCCT
1 TCTTCTTCTTCTTCTTCAAACCAGGTTGGTCGTTTAGATCAATTCTTCCTCACAAGTTGTCCCCT
7844309 CACAGGAGGCCTA
66 CACAGGAGGCCTA
*
7844322 TCTTCTTCTTCTTCTTCAAACCAGGTTGGTCGTTTAGATCCATTCTTCCTCACAAGTTGTCCCCT
1 TCTTCTTCTTCTTCTTCAAACCAGGTTGGTCGTTTAGATCAATTCTTCCTCACAAGTTGTCCCCT
7844387 CACAGGAGGCCTA
66 CACAGGAGGCCTA
7844400 TCTTCTTCTTCTTC
1 TCTTCTTCTTCTTC
7844414 CTCCTCTCCC
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 88 1.00
ACGTcount: A:0.16, C:0.29, G:0.15, T:0.39
Consensus pattern (78 bp):
TCTTCTTCTTCTTCTTCAAACCAGGTTGGTCGTTTAGATCAATTCTTCCTCACAAGTTGTCCCCT
CACAGGAGGCCTA
Found at i:7844454 original size:96 final size:90
Alignment explanation
Indices: 7844422--7844585 Score: 301
Period size: 90 Copynumber: 1.8 Consensus size: 90
7844412 TCCTCCTCTC
*
7844422 CCTCTTCCTCTTTGAACCAGGTTGGCCATTTAGATCCATTCTTCCTCACAAATTGTCCCCTCACA
1 CCTCTTCCTCTTCGAACCAGGTTGGCCATTTAGATCCATTCTTCCTCACAAATTGTCCCCTCACA
7844487 TGAGGCCTTCTTTCTTCTTATTTTT
66 TGAGGCCTTCTTTCTTCTTATTTTT
* *
7844512 CTTCTTCCTCTTCGAACCATGTTGGCCATTTAGATCCATTCTTCCTCACAAATTGTCCCCTCACA
1 CCTCTTCCTCTTCGAACCAGGTTGGCCATTTAGATCCATTCTTCCTCACAAATTGTCCCCTCACA
7844577 TGAGGCCTT
66 TGAGGCCTT
7844586 TTAGAGGTGG
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
90 71 1.00
ACGTcount: A:0.18, C:0.32, G:0.12, T:0.38
Consensus pattern (90 bp):
CCTCTTCCTCTTCGAACCAGGTTGGCCATTTAGATCCATTCTTCCTCACAAATTGTCCCCTCACA
TGAGGCCTTCTTTCTTCTTATTTTT
Found at i:7851008 original size:27 final size:27
Alignment explanation
Indices: 7850931--7851055 Score: 178
Period size: 28 Copynumber: 4.5 Consensus size: 27
7850921 AAATTTCGGG
*
7850931 TCGGGTCGGGTTTTTTAAAGTTTGATAT
1 TCGGGTCGGGTTTTTT-AAGTGTGATAT
7850959 TCGGGTCGGGTTTTTGTAAGTGTGATAT
1 TCGGGTCGGGTTTTT-TAAGTGTGATAT
7850987 TCGGGTCGGGTTTTTTAAGTGTGATAT
1 TCGGGTCGGGTTTTTTAAGTGTGATAT
* *
7851014 TCGGGACAGGTTTTTTTTAAGTGTGATAT
1 TCGGGTC-GG-GTTTTTTAAGTGTGATAT
*
7851043 TCGAGTCGGGTTT
1 TCGGGTCGGGTTT
7851056 GGGTTTAGGG
Statistics
Matches: 88, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
27 21 0.24
28 44 0.50
29 23 0.26
ACGTcount: A:0.16, C:0.08, G:0.32, T:0.44
Consensus pattern (27 bp):
TCGGGTCGGGTTTTTTAAGTGTGATAT
Found at i:7851624 original size:16 final size:18
Alignment explanation
Indices: 7851603--7851650 Score: 73
Period size: 16 Copynumber: 2.8 Consensus size: 18
7851593 GTTTCAGATT
7851603 CAGATTCCAATTCC-T-A
1 CAGATTCCAATTCCTTCA
7851619 CAGATTCCAATTCCTTCA
1 CAGATTCCAATTCCTTCA
*
7851637 CAGATTTCAATTCC
1 CAGATTCCAATTCC
7851651 CTCATAAACA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
16 14 0.48
17 1 0.03
18 14 0.48
ACGTcount: A:0.29, C:0.31, G:0.06, T:0.33
Consensus pattern (18 bp):
CAGATTCCAATTCCTTCA
Found at i:7856365 original size:20 final size:20
Alignment explanation
Indices: 7856342--7856396 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
7856332 CTCAAAATCA
7856342 TTTTTCAAAATCAAATTTTG
1 TTTTTCAAAATCAAATTTTG
7856362 TTTTTCAAAATCAAATTTTG
1 TTTTTCAAAATCAAATTTTG
* *
7856382 -CTTTCGAAATCAAAT
1 TTTTTCAAAATCAAAT
7856397 CATTTTTAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
19 13 0.39
20 20 0.61
ACGTcount: A:0.36, C:0.13, G:0.05, T:0.45
Consensus pattern (20 bp):
TTTTTCAAAATCAAATTTTG
Found at i:7856896 original size:14 final size:14
Alignment explanation
Indices: 7856877--7856907 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
7856867 ACCTCATTCT
*
7856877 TTTTATTTTTCTTC
1 TTTTATTCTTCTTC
7856891 TTTTATTCTTCTTC
1 TTTTATTCTTCTTC
7856905 TTT
1 TTT
7856908 CTTTCTTTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTATTCTTCTTC
Found at i:7857405 original size:24 final size:23
Alignment explanation
Indices: 7857378--7857438 Score: 72
Period size: 21 Copynumber: 2.7 Consensus size: 23
7857368 TACCCCACAA
* *
7857378 GTACTGATACCCCTATACAAAGAG
1 GTACCGATACCCCTAGACAAA-AG
*
7857402 GTACCGATA--CCTAGCCAAAAG
1 GTACCGATACCCCTAGACAAAAG
7857423 GTACCGATACCCCTAG
1 GTACCGATACCCCTAG
7857439 TGTTAATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
21 11 0.34
22 8 0.25
23 5 0.16
24 8 0.25
ACGTcount: A:0.34, C:0.30, G:0.18, T:0.18
Consensus pattern (23 bp):
GTACCGATACCCCTAGACAAAAG
Found at i:7863154 original size:22 final size:22
Alignment explanation
Indices: 7863098--7863156 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
7863088 CCATTTTGTG
* *
7863098 CACTATGTATCGATACCTGTCA
1 CACTAGGTATCGATACCTCTCA
* * *
7863120 C-CCAGGTACCGATACCTCTCT
1 CACTAGGTATCGATACCTCTCA
7863141 CACTAGGTATCGATAC
1 CACTAGGTATCGATAC
7863157 ACCTTGAATG
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
21 16 0.55
22 13 0.45
ACGTcount: A:0.25, C:0.32, G:0.15, T:0.27
Consensus pattern (22 bp):
CACTAGGTATCGATACCTCTCA
Found at i:7863202 original size:23 final size:21
Alignment explanation
Indices: 7863147--7863202 Score: 58
Period size: 23 Copynumber: 2.6 Consensus size: 21
7863137 CTCTCACTAG
*
7863147 GTATCGATACACCTTGAATGT
1 GTATCGATACCCCTTGAATGT
* **
7863168 GTATTGGCACCCTACTTGAATGT
1 GTATCGATACCC--CTTGAATGT
7863191 GTATCGATACCC
1 GTATCGATACCC
7863203 ATCAATGGGT
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
21 8 0.31
23 18 0.69
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (21 bp):
GTATCGATACCCCTTGAATGT
Found at i:7863849 original size:12 final size:12
Alignment explanation
Indices: 7863821--7863869 Score: 62
Period size: 12 Copynumber: 4.1 Consensus size: 12
7863811 TCTAGTCGAT
*
7863821 CAAACCGACCTC
1 CAAACCCACCTC
* *
7863833 TAAACCCATCTC
1 CAAACCCACCTC
7863845 CAAACCCACCTC
1 CAAACCCACCTC
*
7863857 CAAATCCACCTC
1 CAAACCCACCTC
7863869 C
1 C
7863870 TATTCCACCA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.33, C:0.51, G:0.02, T:0.14
Consensus pattern (12 bp):
CAAACCCACCTC
Found at i:7869307 original size:17 final size:17
Alignment explanation
Indices: 7869285--7869317 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
7869275 ATATAGCGGC
*
7869285 GTTTACATTCCTAACGA
1 GTTTACATTCCAAACGA
7869302 GTTTACATTCCAAACG
1 GTTTACATTCCAAACG
7869318 CCATAAAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.33
Consensus pattern (17 bp):
GTTTACATTCCAAACGA
Found at i:7873761 original size:18 final size:18
Alignment explanation
Indices: 7873735--7873770 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
7873725 CCGCGTAGAA
* *
7873735 ATGTTCCGAATGACCACT
1 ATGTCCCGAAGGACCACT
7873753 ATGTCCCGAAGGACCACT
1 ATGTCCCGAAGGACCACT
7873771 CCTTAAGAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (18 bp):
ATGTCCCGAAGGACCACT
Found at i:7877582 original size:2 final size:2
Alignment explanation
Indices: 7877575--7877602 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7877565 CAAACTATCC
7877575 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7877603 TCTTTCCAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7884869 original size:23 final size:23
Alignment explanation
Indices: 7884819--7884927 Score: 121
Period size: 23 Copynumber: 4.7 Consensus size: 23
7884809 AATTTGTACC
* * *
7884819 GAAGTACCACGTAGAATTTGTCCT
1 GAAGGACCACGTAGAA-ATATCCT
7884843 GAAGGACCACGTAGAAATATCCT
1 GAAGGACCACGTAGAAATATCCT
7884866 GAAGGACCACGTAGAAA-AGTCCT
1 GAAGGACCACGTAGAAATA-TCCT
* ** *
7884889 GAAGGACCACATAGATTTATCCC
1 GAAGGACCACGTAGAAATATCCT
*
7884912 GAAGGACCGCGTAGAA
1 GAAGGACCACGTAGAA
7884928 CCCTCAACTC
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
22 1 0.01
23 56 0.77
24 16 0.22
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (23 bp):
GAAGGACCACGTAGAAATATCCT
Found at i:7884894 original size:46 final size:47
Alignment explanation
Indices: 7884817--7884927 Score: 143
Period size: 46 Copynumber: 2.4 Consensus size: 47
7884807 ATAATTTGTA
* ** *
7884817 CCGAAGTACCACGTAGAATTTGTCCTGAAGGACCACGTAGAAATATC
1 CCGAAGGACCACGTAGAATAAGTCCTGAAGGACCACATAGAAATATC
* **
7884864 CTGAAGGACCACGTAGAA-AAGTCCTGAAGGACCACATAGATTTATC
1 CCGAAGGACCACGTAGAATAAGTCCTGAAGGACCACATAGAAATATC
*
7884910 CCGAAGGACCGCGTAGAA
1 CCGAAGGACCACGTAGAA
7884928 CCCTCAACTC
Statistics
Matches: 55, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
46 39 0.71
47 16 0.29
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.18
Consensus pattern (47 bp):
CCGAAGGACCACGTAGAATAAGTCCTGAAGGACCACATAGAAATATC
Found at i:7887674 original size:6 final size:6
Alignment explanation
Indices: 7887663--7887704 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
7887653 TTCGAACAAC
7887663 TTCTTT TTC-TT TTC-TT TTCTTT TTC-TT TTCTTT TTCTTT TTC
1 TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TTC
7887705 AAACTGATGC
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 15 0.44
6 19 0.56
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (6 bp):
TTCTTT
Found at i:7887677 original size:5 final size:5
Alignment explanation
Indices: 7887667--7887702 Score: 54
Period size: 5 Copynumber: 6.8 Consensus size: 5
7887657 AACAACTTCT
7887667 TTTTC TTTTC TTTTC TTTTTC TTTTC TTTTTC TTTT
1 TTTTC TTTTC TTTTC -TTTTC TTTTC -TTTTC TTTT
7887703 TCAAACTGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 19 0.66
6 10 0.34
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTC
Found at i:7887679 original size:11 final size:11
Alignment explanation
Indices: 7887667--7887702 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
7887657 AACAACTTCT
7887667 TTTTC-TTTTC
1 TTTTCTTTTTC
7887677 TTTTCTTTTTC
1 TTTTCTTTTTC
7887688 TTTTCTTTTTC
1 TTTTCTTTTTC
7887699 TTTT
1 TTTT
7887703 TCAAACTGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 5 0.20
11 20 0.80
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:7902220 original size:2 final size:2
Alignment explanation
Indices: 7902213--7902249 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
7902203 ATGTTTATTC
7902213 TA TA TA 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 TA TA TA T
7902250 GGAGTATTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7907639 original size:106 final size:105
Alignment explanation
Indices: 7907454--7907691 Score: 311
Period size: 106 Copynumber: 2.2 Consensus size: 105
7907444 TTATTTTTTG
* *
7907454 TGAGTTCTTCTCATTATGAACTCTTCGTTAATCCACCTCCTTGCATGAATGACAATCTCAGGTTG
1 TGAGTTCTTCTCATTACGAACTCTTCATTAATCCACCTCCTTG-ATGAATGACAATCTCAGGTTG
* *
7907519 AACAAGCTCTTCTCATTGCGAACTTCTTCTTTC-TCGTTGGA
65 AACAAGCTCTTCTCATTGCGAACATCTTC-TCCATCGTTGGA
* *
7907560 TGAGTTCTTCTCATTACGAACTCTTCATTTATCCGCCTCCTTG-TGCAATGGACAAT-TCCAGGT
1 TGAGTTCTTCTCATTACGAACTCTTCATTAATCCACCTCCTTGATG-AAT-GACAATCT-CAGGT
* *
7907623 TGAACAAGCTCTTCTCATTGCGAACATGTTCTCCATTGTTGGA
63 TGAACAAGCTCTTCTCATTGCGAACATCTTCTCCATCGTTGGA
** *
7907666 CAAGTTCTTCTCATTACGAACCCTTC
1 TGAGTTCTTCTCATTACGAACTCTTC
7907692 TTCAGAGATG
Statistics
Matches: 117, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
104 2 0.02
105 6 0.05
106 109 0.93
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (105 bp):
TGAGTTCTTCTCATTACGAACTCTTCATTAATCCACCTCCTTGATGAATGACAATCTCAGGTTGA
ACAAGCTCTTCTCATTGCGAACATCTTCTCCATCGTTGGA
Found at i:7908151 original size:116 final size:116
Alignment explanation
Indices: 7907668--7908167 Score: 513
Period size: 116 Copynumber: 4.3 Consensus size: 116
7907658 TTGTTGGACA
* * * * *
7907668 AGTTCTTCTCATTACGAACCCTTCTTCAGAGATGTTGATCTATCTCCTTGCGCGACAGATGTGTC
1 AGTTCTTCTCATTACGAACCCTTCTTCAGAAATATTGATCCATCTCCTTGTGCGACGGATGTGTC
* ** *
7907733 GAGTTCTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCATTGGGTA
66 GAGTTCTAAACAAGTTCTTCTCATTATGAACTTCTTTTTCCTCATTGAATG
* ** * * *
7907784 AGTTCTTCTAATTATAAACCCTTCTTCAGAAATGTTGATCCATCTCCTTGTGTGATGGATGTGTC
1 AGTTCTTCTCATTACGAACCCTTCTTCAGAAATATTGATCCATCTCCTTGTGCGACGGATGTGTC
* * * * **
7907849 GAGTTCTGAATAAGTTATTATCATTATGAACTTCTTCTTT-CTCATTGGGTG
66 GAGTTCTAAACAAGTTCTTCTCATTATGAACTTCTT-TTTCCTCATTGAATG
* * * * **
7907900 AGTTATTCTCATTACGAACCCCTCTTCCGAAATATTGATCCATCTCCTTGTGTGACGGATGTACC
1 AGTTCTTCTCATTACGAACCCTTCTTCAGAAATATTGATCCATCTCCTTGTGCGACGGATGTGTC
* * * * *
7907965 AAGTT-TCGAACAAGTTCTTCTCATTATGAACTTCTTATTACTCGTTGAATG
66 GAGTTCT-AAACAAGTTCTTCTCATTATGAACTTCTTTTTCCTCATTGAATG
* * ** * * *
7908016 AGTTCTTAC-AATAACGAACCCTTCTTTTGAAATATTGATTCATCTCTTTGTGCGACGGATAT-T
1 AGTTCTT-CTCATTACGAACCCTTCTTCAGAAATATTGATCCATCTCCTTGTGCGACGGATGTGT
* * ** *
7908079 CCGATTTCTAAACAAGTTCTTCTCATTATGAACTTTTTTTTCCTCGCTGAACG
65 -CGAGTTCTAAACAAGTTCTTCTCATTATGAACTTCTTTTTCCTCATTGAATG
* * *
7908132 AGTTCTTCTCATTATGAACCCTTCCTCAAAAATATT
1 AGTTCTTCTCATTACGAACCCTTCTTCAGAAATATT
7908168 TGGTCTATCC
Statistics
Matches: 318, Mismatches: 59, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
115 4 0.01
116 310 0.97
117 4 0.01
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.39
Consensus pattern (116 bp):
AGTTCTTCTCATTACGAACCCTTCTTCAGAAATATTGATCCATCTCCTTGTGCGACGGATGTGTC
GAGTTCTAAACAAGTTCTTCTCATTATGAACTTCTTTTTCCTCATTGAATG
Found at i:7908721 original size:41 final size:42
Alignment explanation
Indices: 7908670--7908748 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
7908660 TCTTATGGAT
* * * *
7908670 GGCCCGAAGGACTT-ATCATCTTGCTCGAAAGACTTACAGAA
1 GGCCCAAAGGACTTAAGCATCATGCTCAAAAGACTTACAGAA
*
7908711 GGCCCAAAGGATTTAAGCATCATGCTCAAAAGACTTAC
1 GGCCCAAAGGACTTAAGCATCATGCTCAAAAGACTTAC
7908749 TAATGGCCTG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
41 12 0.38
42 20 0.62
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (42 bp):
GGCCCAAAGGACTTAAGCATCATGCTCAAAAGACTTACAGAA
Found at i:7909151 original size:105 final size:102
Alignment explanation
Indices: 7908963--7909165 Score: 257
Period size: 102 Copynumber: 2.0 Consensus size: 102
7908953 TCATGTCAAT
*
7908963 AAACCTCTGAAAATCAAACTTAGTTTCTTTGAAAATTCATTTGAAAACCTCATCTCAATCAAGAA
1 AAACCTCTGAAAATCAAACTTAGTTTCTTTAAAAATTCATTTGAAAACCTCATCTCAATCAAGAA
* *
7909028 ACCTCTGAAAGTCAGACTTGGCTTCTTTAAAAACTCA
66 ACCTCTGAAAATCAGACTTAGCTTCTTTAAAAACTCA
* * * * *
7909065 AAACGTCTTAAAATCAAACTTAGTTTCTTCTAAAAATTCTTTTG-AAACAC-CATGTTAATCTTC
1 AAACCTCTGAAAATCAAACTTAGTTTCTT-TAAAAATTCATTTGAAAAC-CTCATCTCAA---TC
* *
7909128 AAGAAACCTCTGAAAATTAGACTTAGTTTCTTTAAAAA
61 AAGAAACCTCTGAAAATCAGACTTAGCTTCTTTAAAAA
7909166 ATCACATTAG
Statistics
Matches: 86, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
102 37 0.43
103 13 0.15
105 36 0.42
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.33
Consensus pattern (102 bp):
AAACCTCTGAAAATCAAACTTAGTTTCTTTAAAAATTCATTTGAAAACCTCATCTCAATCAAGAA
ACCTCTGAAAATCAGACTTAGCTTCTTTAAAAACTCA
Found at i:7917848 original size:12 final size:12
Alignment explanation
Indices: 7917823--7917891 Score: 59
Period size: 12 Copynumber: 5.8 Consensus size: 12
7917813 ACGGAGATAT
* *
7917823 CAGAAATCAAAA
1 CAGAATTCAGAA
7917835 CAGAATTCAGAA
1 CAGAATTCAGAA
7917847 CAG-ATATCAGAA
1 CAGAAT-TCAGAA
* * *
7917859 CAGAATCCATAT
1 CAGAATTCAGAA
* *
7917871 CAAAAATCAGAA
1 CAGAATTCAGAA
7917883 CAGAATTCA
1 CAGAATTCA
7917892 AGTCATGTAT
Statistics
Matches: 43, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
11 2 0.05
12 39 0.91
13 2 0.05
ACGTcount: A:0.54, C:0.19, G:0.12, T:0.16
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:7917850 original size:24 final size:24
Alignment explanation
Indices: 7917823--7917891 Score: 84
Period size: 24 Copynumber: 2.9 Consensus size: 24
7917813 ACGGAGATAT
*
7917823 CAGAAATCAAAACAGAATTCAGAA
1 CAGAAATCAGAACAGAATTCAGAA
* * * *
7917847 CAGATATCAGAACAGAATCCATAT
1 CAGAAATCAGAACAGAATTCAGAA
*
7917871 CAAAAATCAGAACAGAATTCA
1 CAGAAATCAGAACAGAATTCA
7917892 AGTCATGTAT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.54, C:0.19, G:0.12, T:0.16
Consensus pattern (24 bp):
CAGAAATCAGAACAGAATTCAGAA
Found at i:7917925 original size:48 final size:48
Alignment explanation
Indices: 7917819--7917912 Score: 129
Period size: 48 Copynumber: 2.0 Consensus size: 48
7917809 GTAAACGGAG
*
7917819 ATATCAGAAATCAAAACAGAATTCAGAACAGATATCAGAACAGAATCC
1 ATATCAAAAATCAAAACAGAATTCAGAACAGATATCAGAACAGAATCC
* *
7917867 ATATCAAAAATCAGAACAGAATTCA-AGTCATG-TATCAGAACAGAAT
1 ATATCAAAAATCAAAACAGAATTCAGA-ACA-GATATCAGAACAGAAT
7917913 TCAAGTCGAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
47 1 0.02
48 39 0.95
49 1 0.02
ACGTcount: A:0.51, C:0.17, G:0.13, T:0.19
Consensus pattern (48 bp):
ATATCAAAAATCAAAACAGAATTCAGAACAGATATCAGAACAGAATCC
Found at i:7930074 original size:2 final size:2
Alignment explanation
Indices: 7930067--7930126 Score: 111
Period size: 2 Copynumber: 29.5 Consensus size: 2
7930057 GCATCCAAAC
7930067 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7930109 AT AT AT AT AT AT CAT AT A
1 AT AT AT AT AT AT -AT AT A
7930127 CCTACATATT
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 55 0.96
3 2 0.04
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7930485 original size:23 final size:23
Alignment explanation
Indices: 7930459--7930572 Score: 140
Period size: 23 Copynumber: 5.0 Consensus size: 23
7930449 AGGTTGTGCT
* *
7930459 CGTATAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCG
* *
7930482 CGTAGAATTGCACCGTAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
*
7930505 CATAGAAATGCACC-ATAGTGCCG
1 CGTAGAAATGCACCGA-AGTGCCG
* * *
7930528 CATAGAAATGCACTGTAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
7930551 CGTAGAAATGCACCGAAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
7930573 ATATGAAATG
Statistics
Matches: 77, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
23 77 1.00
ACGTcount: A:0.31, C:0.25, G:0.25, T:0.18
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCG
Found at i:7930534 original size:46 final size:46
Alignment explanation
Indices: 7930464--7930582 Score: 161
Period size: 46 Copynumber: 2.6 Consensus size: 46
7930454 GTGCTCGTAT
* *
7930464 AAATGCACCGAAGTGCCACGTAGAATTGCACCGTAGTGCCGCATAG
1 AAATGCACCGAAGTGCCACATAGAAATGCACCGTAGTGCCGCATAG
* * *
7930510 AAATGCACC-ATAGTGCCGCATAGAAATGCACTGTAGTGCCGCGTAG
1 AAATGCACCGA-AGTGCCACATAGAAATGCACCGTAGTGCCGCATAG
*
7930556 AAATGCACCGAAGTGCCATAT-GAAATG
1 AAATGCACCGAAGTGCCACATAGAAATG
7930583 TCCTTAAGGA
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
45 7 0.11
46 56 0.88
47 1 0.02
ACGTcount: A:0.33, C:0.24, G:0.25, T:0.18
Consensus pattern (46 bp):
AAATGCACCGAAGTGCCACATAGAAATGCACCGTAGTGCCGCATAG
Found at i:7942334 original size:9 final size:9
Alignment explanation
Indices: 7942320--7942357 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
7942310 AAAAAATGAT
7942320 ATATTTTAA
1 ATATTTTAA
7942329 ATATTTTAA
1 ATATTTTAA
*
7942338 ATTAATTTAA
1 A-TATTTTAA
7942348 ATA-TTTAA
1 ATATTTTAA
7942356 AT
1 AT
7942358 GAAAAAAGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
8 7 0.26
9 12 0.44
10 8 0.30
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (9 bp):
ATATTTTAA
Found at i:7943949 original size:6 final size:6
Alignment explanation
Indices: 7943938--7943987 Score: 52
Period size: 6 Copynumber: 8.8 Consensus size: 6
7943928 TCTCTTATGA
* * *
7943938 TTTTTC TTTTTC -TTTTC -TTTTC TTTCTC TCTTTC TTTTT- TTTTTA
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
7943983 TTTTT
1 TTTTT
7943988 TATCATAATC
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
5 15 0.39
6 23 0.61
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTC
Found at i:7946713 original size:32 final size:32
Alignment explanation
Indices: 7946677--7946751 Score: 141
Period size: 32 Copynumber: 2.3 Consensus size: 32
7946667 TTTTCTCTTG
*
7946677 TGCTCGTTAAGAAAACTTGTTGCTCAACTCAT
1 TGCTCTTTAAGAAAACTTGTTGCTCAACTCAT
7946709 TGCTCTTTAAGAAAACTTGTTGCTCAACTCAT
1 TGCTCTTTAAGAAAACTTGTTGCTCAACTCAT
7946741 TGCTCTTTAAG
1 TGCTCTTTAAG
7946752 CTCTTTTGTC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (32 bp):
TGCTCTTTAAGAAAACTTGTTGCTCAACTCAT
Found at i:7948511 original size:22 final size:21
Alignment explanation
Indices: 7948463--7948524 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 21
7948453 CAAGGGCTTG
*
7948463 TTTAAATTTTAAAAAAAGTTA
1 TTTAAATTTTAAAAAAAATTA
7948484 TTTTAAATTTTAAATATAAAATTA
1 -TTTAAATTTTAAA-A-AAAATTA
* * *
7948508 TTAAAATATTCAAAAAA
1 TTTAAATTTTAAAAAAA
7948525 TTAAATATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
21 3 0.09
22 14 0.41
23 11 0.32
24 6 0.18
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (21 bp):
TTTAAATTTTAAAAAAAATTA
Found at i:7948535 original size:23 final size:23
Alignment explanation
Indices: 7948509--7948577 Score: 59
Period size: 23 Copynumber: 3.0 Consensus size: 23
7948499 ATAAAATTAT
7948509 TAAAATATTCAAAAAATTAAATA
1 TAAAATATTCAAAAAATTAAATA
* * * *
7948532 TAAAAAATACTAAAAA-TAAAAA
1 TAAAATATTCAAAAAATTAAATA
* *
7948554 TCAAATTATTAAAAAAAATTAAAT
1 T-AAAATATT-CAAAAAATTAAAT
7948578 TTTCATATTA
Statistics
Matches: 33, Mismatches: 10, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
22 6 0.18
23 18 0.55
24 5 0.15
25 4 0.12
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (23 bp):
TAAAATATTCAAAAAATTAAATA
Found at i:7948800 original size:25 final size:25
Alignment explanation
Indices: 7948767--7948822 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
7948757 TTTTTACTAG
*
7948767 ATTAATCGAGACTTACAAAGTTTAA
1 ATTAGTCGAGACTTACAAAGTTTAA
* * *
7948792 ATTAGTCGAGACTTATAAATTTTGA
1 ATTAGTCGAGACTTACAAAGTTTAA
7948817 ATTAGT
1 ATTAGT
7948823 TTACTATGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (25 bp):
ATTAGTCGAGACTTACAAAGTTTAA
Found at i:7949387 original size:13 final size:13
Alignment explanation
Indices: 7949369--7949394 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7949359 ATGTCATCAA
7949369 CCACATCAGACTG
1 CCACATCAGACTG
7949382 CCACATCAGACTG
1 CCACATCAGACTG
7949395 TGGTTTGCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.38, G:0.15, T:0.15
Consensus pattern (13 bp):
CCACATCAGACTG
Found at i:7950295 original size:15 final size:14
Alignment explanation
Indices: 7950275--7950323 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 14
7950265 AATATATAGC
7950275 TTTTAAAAGATGGTT
1 TTTTAAAA-ATGGTT
*
7950290 TTTTAAAACATAGTT
1 TTTTAAAA-ATGGTT
*
7950305 TTTGAAAAATTGGTT
1 TTTTAAAAA-TGGTT
7950320 TTTT
1 TTTT
7950324 GAAATTTATA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
14 1 0.04
15 27 0.96
ACGTcount: A:0.33, C:0.02, G:0.14, T:0.51
Consensus pattern (14 bp):
TTTTAAAAATGGTT
Found at i:7955443 original size:3 final size:3
Alignment explanation
Indices: 7955435--7955490 Score: 52
Period size: 3 Copynumber: 20.3 Consensus size: 3
7955425 TCCATTTTTA
7955435 TAT TAT TAT T-T TA- TAT TAT TAT T-T TA- TAT TAT TA- TATT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT
*
7955476 T-T TAT TTT TAT TAT T
1 TAT TAT TAT TAT TAT T
7955491 TCAGATCCAA
Statistics
Matches: 44, Mismatches: 2, Indels: 14
0.73 0.03 0.23
Matches are distributed among these distances:
2 12 0.27
3 30 0.68
4 2 0.05
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TAT
Found at i:7955446 original size:13 final size:13
Alignment explanation
Indices: 7955430--7955490 Score: 92
Period size: 13 Copynumber: 4.9 Consensus size: 13
7955420 TATTTTCCAT
7955430 TTTTATATTATTA
1 TTTTATATTATTA
7955443 TTTTATATTATTA
1 TTTTATATTATTA
7955456 TTTTATATTATTA
1 TTTTATATTATTA
*
7955469 TATT-TATT-TTA
1 TTTTATATTATTA
7955480 TTTT-TATTATT
1 TTTTATATTATT
7955491 TCAGATCCAA
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
11 10 0.22
12 6 0.13
13 29 0.64
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTATATTATTA
Found at i:7956618 original size:22 final size:22
Alignment explanation
Indices: 7956571--7956641 Score: 58
Period size: 23 Copynumber: 3.2 Consensus size: 22
7956561 AATTCAATTA
* *
7956571 ATTTAA-ATTTTCTATTATTTTCT
1 ATTTAATATTTTATTTTA-TTT-T
7956594 ATTTAATATTTTATTTTATTTT
1 ATTTAATATTTTATTTTATTTT
*
7956616 ATTTTAAT-TATTTA-TTTACTTT
1 A-TTTAATAT-TTTATTTTATTTT
7956638 ATTT
1 ATTT
7956642 TAACCCTAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
21 3 0.07
22 11 0.26
23 19 0.45
24 9 0.21
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (22 bp):
ATTTAATATTTTATTTTATTTT
Found at i:7956621 original size:23 final size:23
Alignment explanation
Indices: 7956572--7956644 Score: 71
Period size: 22 Copynumber: 3.2 Consensus size: 23
7956562 ATTCAATTAA
* * *
7956572 TTTAA-ATTTTCTATTATTTTCT
1 TTTAATATTTTATTTTATTTTAT
7956594 ATTTAATATTTTATTTTATTTTAT
1 -TTTAATATTTTATTTTATTTTAT
*
7956618 TTTAAT-TATTTA-TTTACTTTAT
1 TTTAATAT-TTTATTTTATTTTAT
7956640 TTTAA
1 TTTAA
7956645 CCCTAATGCT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
22 15 0.34
23 15 0.34
24 14 0.32
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.68
Consensus pattern (23 bp):
TTTAATATTTTATTTTATTTTAT
Found at i:7968299 original size:73 final size:73
Alignment explanation
Indices: 7968179--7968423 Score: 330
Period size: 73 Copynumber: 3.4 Consensus size: 73
7968169 ATATAGTTGG
* * * * *
7968179 GACTTAACTTCATGAA-GAATGAGTCACCCAAGATTTCAACTTAACAACGAAGGATATTGTGCCC
1 GACTTAACTTCA-CAACGAAGGAGTCACCCACGATTTCAACTTCACAACGAAGGATATCGTGCCC
7968243 AAAAGTTTC
65 AAAAGTTTC
* * *
7968252 GACTTAACTTCACGACGAAGGAGTCACCCACGATTTCAACTTCACAACGAAGGATATCGTTCCCC
1 GACTTAACTTCACAACGAAGGAGTCACCCACGATTTCAACTTCACAACGAAGGATATCGTGCCCA
7968317 AAAGTTTC
66 AAAGTTTC
* * * ** *
7968325 GACTTAACTTCACAACGAATGAGTCACCCACGATTTCCACTTCACAACGAAGGATGTCAAGCTCA
1 GACTTAACTTCACAACGAAGGAGTCACCCACGATTTCAACTTCACAACGAAGGATATCGTGCCCA
* *
7968390 GAAGTATC
66 AAAGTTTC
7968398 GACTTAACTTCACAACGAAGGAGTCA
1 GACTTAACTTCACAACGAAGGAGTCA
7968424 TCTGCAACAA
Statistics
Matches: 151, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
72 1 0.01
73 150 0.99
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.23
Consensus pattern (73 bp):
GACTTAACTTCACAACGAAGGAGTCACCCACGATTTCAACTTCACAACGAAGGATATCGTGCCCA
AAAGTTTC
Found at i:7968302 original size:32 final size:33
Alignment explanation
Indices: 7968257--7968383 Score: 100
Period size: 32 Copynumber: 3.7 Consensus size: 33
7968247 GTTTCGACTT
*
7968257 AACTTCACGACGAAGGA-GTCACCCACGATTTC
1 AACTTCACAACGAAGGATGTCACCCACGATTTC
*
7968289 AACTTCACAACGAAGGATATCGTTC-CCCA-AAGTTTCGAC
1 AACTTCACAACGAAGG--AT-G-TCACCCACGA-TTT---C
*
7968328 TTAACTTCACAACGAATGA-GTCACCCACGATTTC
1 --AACTTCACAACGAAGGATGTCACCCACGATTTC
*
7968362 CACTTCACAACGAAGGATGTCA
1 AACTTCACAACGAAGGATGTCA
7968384 AGCTCAGAAG
Statistics
Matches: 75, Mismatches: 6, Indels: 27
0.69 0.06 0.25
Matches are distributed among these distances:
32 30 0.40
33 4 0.05
34 2 0.03
35 1 0.01
36 10 0.13
37 10 0.13
38 1 0.01
39 2 0.03
41 15 0.20
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.22
Consensus pattern (33 bp):
AACTTCACAACGAAGGATGTCACCCACGATTTC
Found at i:7969021 original size:6 final size:6
Alignment explanation
Indices: 7969012--7969060 Score: 53
Period size: 6 Copynumber: 7.8 Consensus size: 6
7969002 TTATTAGCAT
* * *
7969012 TTTTTA TTTTTCA TTTTCA TTTTTA TATTTA TATTTA TATTTTA TTTTT
1 TTTTTA TTTTT-A TTTTTA TTTTTA TTTTTA TTTTTA T-TTTTA TTTTT
7969061 CTTATTTTAG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
6 27 0.73
7 10 0.27
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (6 bp):
TTTTTA
Found at i:7969034 original size:19 final size:19
Alignment explanation
Indices: 7969012--7969067 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
7969002 TTATTAGCAT
7969012 TTTTTATTTTTCAT-TTTCA
1 TTTTTATTTTTCATATTT-A
*
7969031 TTTTTATATTT-ATATTTA
1 TTTTTATTTTTCATATTTA
*
7969049 TATTTTATTTTTCTTATTT
1 T-TTTTATTTTTCATATTT
7969068 TAGGTCTAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
18 4 0.13
19 22 0.71
20 5 0.16
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTTTATTTTTCATATTTA
Found at i:7969069 original size:14 final size:13
Alignment explanation
Indices: 7969013--7969060 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
7969003 TATTAGCATT
7969013 TTTTATTTTTCAT-
1 TTTTATTTTT-ATA
*
7969026 TTTCATTTTTATA
1 TTTTATTTTTATA
*
7969039 -TTTATATTTATA
1 TTTTATTTTTATA
7969051 TTTTATTTTT
1 TTTTATTTTT
7969061 CTTATTTTAG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
12 12 0.41
13 17 0.59
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.75
Consensus pattern (13 bp):
TTTTATTTTTATA
Found at i:7970167 original size:30 final size:31
Alignment explanation
Indices: 7970119--7970242 Score: 100
Period size: 27 Copynumber: 4.2 Consensus size: 31
7970109 TTGTTTCCTT
* * * *
7970119 TTTTAATTTAATTCAATTAATTTAAAT-TTTC
1 TTTTATTTTATTTTAATT-ATTTAAATATTTA
* *
7970150 TTTTA-TTTCTTTTAATTATCT-AATATTTA
1 TTTTATTTTATTTTAATTATTTAAATATTTA
7970179 TTTTATTTTATTTTAATTA-TT---TATTTA
1 TTTTATTTTATTTTAATTATTTAAATATTTA
* **
7970206 CTTTATTTTATTTTAATTATTTATTTACTTTA
1 TTTTATTTTATTTTAATTATTTAAATA-TTTA
7970238 TTTTA
1 TTTTA
7970243 ACCCTAATGT
Statistics
Matches: 77, Mismatches: 9, Indels: 13
0.78 0.09 0.13
Matches are distributed among these distances:
27 24 0.31
28 5 0.06
29 12 0.16
30 21 0.27
31 7 0.09
32 8 0.10
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (31 bp):
TTTTATTTTATTTTAATTATTTAAATATTTA
Found at i:7970198 original size:9 final size:9
Alignment explanation
Indices: 7970150--7970240 Score: 69
Period size: 9 Copynumber: 9.9 Consensus size: 9
7970140 TTAAATTTTC
*
7970150 TTTTATTTC
1 TTTTATTTA
*
7970159 TTTTAATTA
1 TTTTATTTA
*
7970168 TCTAATATTTA
1 T-T-TTATTTA
7970179 TTTTATTTTA
1 TTTTA-TTTA
*
7970189 TTTTAATTA
1 TTTTATTTA
7970198 -TTTATTTA
1 TTTTATTTA
*
7970206 CTTTATTTTA
1 TTTTA-TTTA
*
7970216 TTTTAATTA
1 TTTTATTTA
7970225 -TTTATTTA
1 TTTTATTTA
*
7970233 CTTTATTT
1 TTTTATTT
7970241 TAACCCTAAT
Statistics
Matches: 66, Mismatches: 10, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
8 14 0.21
9 27 0.41
10 19 0.29
11 6 0.09
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.70
Consensus pattern (9 bp):
TTTTATTTA
Found at i:7970210 original size:27 final size:27
Alignment explanation
Indices: 7970151--7970242 Score: 132
Period size: 27 Copynumber: 3.3 Consensus size: 27
7970141 TAAATTTTCT
* *
7970151 TTTA-TTTCTTTTAATTATCTAATATTTAT
1 TTTATTTTATTTTAATTAT-T--TATTTAC
7970180 TTTATTTTATTTTAATTATTTATTTAC
1 TTTATTTTATTTTAATTATTTATTTAC
7970207 TTTATTTTATTTTAATTATTTATTTAC
1 TTTATTTTATTTTAATTATTTATTTAC
7970234 TTTATTTTA
1 TTTATTTTA
7970243 ACCCTAATGT
Statistics
Matches: 60, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
27 42 0.70
29 5 0.08
30 13 0.22
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (27 bp):
TTTATTTTATTTTAATTATTTATTTAC
Found at i:7970242 original size:5 final size:4
Alignment explanation
Indices: 7970173--7970240 Score: 55
Period size: 5 Copynumber: 15.2 Consensus size: 4
7970163 AATTATCTAA
* *
7970173 TATT TATTT TATTT TATTT TAAT TATT TATT TACTT TATTT TATTT TAAT
1 TATT TA-TT TA-TT TA-TT TATT TATT TATT TA-TT TA-TT TA-TT TATT
7970223 TATT TATT TACTT TATT T
1 TATT TATT TA-TT TATT T
7970241 TAACCCTAAT
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
4 25 0.45
5 31 0.55
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (4 bp):
TATT
Found at i:7971338 original size:24 final size:19
Alignment explanation
Indices: 7971279--7971328 Score: 100
Period size: 19 Copynumber: 2.6 Consensus size: 19
7971269 ATGCAATGAA
7971279 TGCATCGATGCATAAGGAG
1 TGCATCGATGCATAAGGAG
7971298 TGCATCGATGCATAAGGAG
1 TGCATCGATGCATAAGGAG
7971317 TGCATCGATGCA
1 TGCATCGATGCA
7971329 CATGTTAAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.22
Consensus pattern (19 bp):
TGCATCGATGCATAAGGAG
Found at i:7971374 original size:20 final size:21
Alignment explanation
Indices: 7971317--7971374 Score: 55
Period size: 20 Copynumber: 2.7 Consensus size: 21
7971307 GCATAAGGAG
*
7971317 TGCATCGATGCACATGTTAAGGGA
1 TGCATCGATGCAC-TGTT-A-GAA
* *
7971341 TGCATCGGTACACTGTT-GAA
1 TGCATCGATGCACTGTTAGAA
7971361 TGCATCGATGCACT
1 TGCATCGATGCACT
7971375 TCAAGGGGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
20 14 0.48
23 4 0.14
24 11 0.38
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28
Consensus pattern (21 bp):
TGCATCGATGCACTGTTAGAA
Found at i:7972951 original size:23 final size:24
Alignment explanation
Indices: 7972883--7972943 Score: 99
Period size: 23 Copynumber: 2.6 Consensus size: 24
7972873 ACATTTTATA
7972883 TGGCACTTCGGTGCAATTCTACGC
1 TGGCACTTCGGTGCAATTCTACGC
7972907 T-GCACTTCGGTGCAATTCTACG-
1 TGGCACTTCGGTGCAATTCTACGC
*
7972929 TGGCACTTTGGTGCA
1 TGGCACTTCGGTGCA
7972944 TTTATACGAG
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
22 1 0.03
23 33 0.94
24 1 0.03
ACGTcount: A:0.16, C:0.26, G:0.26, T:0.31
Consensus pattern (24 bp):
TGGCACTTCGGTGCAATTCTACGC
Found at i:7991893 original size:83 final size:84
Alignment explanation
Indices: 7991748--7991911 Score: 208
Period size: 83 Copynumber: 2.0 Consensus size: 84
7991738 TTATAGAGGT
* * *
7991748 GTTTGTTAAAAAAACGCCACTATATATGAAACCTATTGTGGCGTTTTCTAAAAAAACACCACTAA
1 GTTTGTTAAAAAAACGCCACTATATATGAAACCTATTGCGACATTTTCTAAAAAAACACCACTAA
*
7991813 GGTA-CAAGTCTGTTGCAGC
66 AGTACCAA-TCTGTTGCAGC
* * * * *
7991832 GTTTGTT-AAAAAATGCCACTATATATGAACCCTATTGCGACATTTGTGT-AAAAACCGCCACTA
1 GTTTGTTAAAAAAACGCCACTATATATGAAACCTATTGCGACATTT-TCTAAAAAAACACCACTA
7991895 AAGTACCAATCTGTTGC
65 AAGTACCAATCTGTTGC
7991912 GACGATTGTT
Statistics
Matches: 69, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
83 57 0.83
84 12 0.17
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (84 bp):
GTTTGTTAAAAAAACGCCACTATATATGAAACCTATTGCGACATTTTCTAAAAAAACACCACTAA
AGTACCAATCTGTTGCAGC
Found at i:7997332 original size:6 final size:6
Alignment explanation
Indices: 7997321--7997364 Score: 65
Period size: 6 Copynumber: 7.7 Consensus size: 6
7997311 TTTACCTTTG
*
7997321 GACCAC GACCAC GACCAC GACCAC AACC-C GACCAC GACC-C GACC
1 GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GACC
7997365 CGAGACGGGA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
5 9 0.26
6 26 0.74
ACGTcount: A:0.32, C:0.52, G:0.16, T:0.00
Consensus pattern (6 bp):
GACCAC
Found at i:7997354 original size:11 final size:11
Alignment explanation
Indices: 7997321--7997364 Score: 61
Period size: 11 Copynumber: 3.8 Consensus size: 11
7997311 TTTACCTTTG
7997321 GACCACGACCAC
1 GACC-CGACCAC
7997333 GACCACGACCAC
1 GACC-CGACCAC
*
7997345 AACCCGACCAC
1 GACCCGACCAC
7997356 GACCCGACC
1 GACCCGACC
7997365 CGAGACGGGA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
11 15 0.50
12 15 0.50
ACGTcount: A:0.32, C:0.52, G:0.16, T:0.00
Consensus pattern (11 bp):
GACCCGACCAC
Found at i:7997794 original size:25 final size:25
Alignment explanation
Indices: 7997765--7997821 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 25
7997755 GTTGATTCAG
* *
7997765 TTGTTTTAAGGTGCATGATTGTTAA
1 TTGTTTCAAGGTGCATGATTGCTAA
*
7997790 TTGTTTCATGGTGCATGATTGCTAA
1 TTGTTTCAAGGTGCATGATTGCTAA
7997815 TTGTTTC
1 TTGTTTC
7997822 CTGAATAATC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.19, C:0.09, G:0.23, T:0.49
Consensus pattern (25 bp):
TTGTTTCAAGGTGCATGATTGCTAA
Found at i:7998155 original size:21 final size:22
Alignment explanation
Indices: 7998125--7998185 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 22
7998115 AATGAATTTG
7998125 GAATAAATCGCAACGCGAACTTC
1 GAAT-AATCGCAACGCGAACTTC
* *
7998148 GACT-ATCGCAA--CGAACTTG
1 GAATAATCGCAACGCGAACTTC
7998167 GAATAAATCGCAACGCGAA
1 GAAT-AATCGCAACGCGAA
7998186 TTTGGAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
19 10 0.32
21 14 0.45
23 7 0.23
ACGTcount: A:0.39, C:0.25, G:0.20, T:0.16
Consensus pattern (22 bp):
GAATAATCGCAACGCGAACTTC
Found at i:7998168 original size:42 final size:42
Alignment explanation
Indices: 7998106--7998185 Score: 142
Period size: 42 Copynumber: 1.9 Consensus size: 42
7998096 TGCGATTTTG
* *
7998106 GACTATCGCAATGAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
7998148 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAA
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAA
7998186 TTTGGAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.20
Consensus pattern (42 bp):
GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
Found at i:7998196 original size:21 final size:23
Alignment explanation
Indices: 7998122--7998192 Score: 87
Period size: 23 Copynumber: 3.3 Consensus size: 23
7998112 CGCAATGAAT
7998122 TTGGAATAAATCGCAACGCGAAC
1 TTGGAATAAATCGCAACGCGAAC
* *
7998145 TTCGACT--ATCGCAA--CGAAC
1 TTGGAATAAATCGCAACGCGAAC
*
7998164 TTGGAATAAATCGCAACGCGAAT
1 TTGGAATAAATCGCAACGCGAAC
7998187 TTGGAA
1 TTGGAA
7998193 AATCACGTTG
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
19 10 0.26
21 14 0.36
23 15 0.38
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (23 bp):
TTGGAATAAATCGCAACGCGAAC
Found at i:8004104 original size:3 final size:3
Alignment explanation
Indices: 8004096--8004120 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
8004086 TTCCCTTTAC
8004096 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
8004121 TGAGATTAGA
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:8004889 original size:17 final size:17
Alignment explanation
Indices: 8004867--8004906 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
8004857 TTGATAGATA
* *
8004867 AATTTTTATTTAGAATT
1 AATTTTTAATTAAAATT
8004884 AATTTTTAATTAAAATT
1 AATTTTTAATTAAAATT
*
8004901 TATTTT
1 AATTTT
8004907 AATAATTGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (17 bp):
AATTTTTAATTAAAATT
Found at i:8006826 original size:129 final size:129
Alignment explanation
Indices: 8006596--8006848 Score: 328
Period size: 129 Copynumber: 2.0 Consensus size: 129
8006586 CATTTTTCGG
** *
8006596 GTTTGACCGATAATTCGGAGGCTTTCGGCTTTGAATTTGGCAAAACGGACAGCGAAATCGGAATC
1 GTTTGACCGATAATTCGGAGGCTTTCGGCTTCAAATTTGGCAAAACGGACAGCGAAATCAGAATC
**
8006661 AGGATGTCGAAAAACATAAAATATGTCTTTCAAAAAATTTGGAC-GTTTTGGTCAAAGTTAATAA
66 AGGACATCGAAAAACATAAAATATGTCTTTCAAAAAATTT-GACTGTTTTGGTCAAAGTTAATAA
* ** * * ** * * *
8006725 GTTTGACTGATAATTTTGAGGCTTTTGGGTTCAAATTTGGCAAAACGGACTTCGGATTCAGACTC
1 GTTTGACCGATAATTCGGAGGCTTTCGGCTTCAAATTTGGCAAAACGGACAGCGAAATCAGAATC
* *
8006790 AGGACATCGAAAAATATAAAATATGTCTTTTCAAAAAATTTGACTTTTTTGGTCAAAGT
66 AGGACATCGAAAAACATAAAATATGTC-TTTCAAAAAATTTGACTGTTTTGGTCAAAGT
8006849 CAACGGTCAA
Statistics
Matches: 105, Mismatches: 17, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
129 79 0.75
130 26 0.25
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (129 bp):
GTTTGACCGATAATTCGGAGGCTTTCGGCTTCAAATTTGGCAAAACGGACAGCGAAATCAGAATC
AGGACATCGAAAAACATAAAATATGTCTTTCAAAAAATTTGACTGTTTTGGTCAAAGTTAATAA
Found at i:8012555 original size:35 final size:35
Alignment explanation
Indices: 8012516--8012600 Score: 170
Period size: 35 Copynumber: 2.4 Consensus size: 35
8012506 TTAACGGGTT
8012516 CGGGTCGGGTCAAACCCGGTCAAAATCAGGTCAAA
1 CGGGTCGGGTCAAACCCGGTCAAAATCAGGTCAAA
8012551 CGGGTCGGGTCAAACCCGGTCAAAATCAGGTCAAA
1 CGGGTCGGGTCAAACCCGGTCAAAATCAGGTCAAA
8012586 CGGGTCGGGTCAAAC
1 CGGGTCGGGTCAAAC
8012601 TGCCCCAACA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 50 1.00
ACGTcount: A:0.29, C:0.26, G:0.31, T:0.14
Consensus pattern (35 bp):
CGGGTCGGGTCAAACCCGGTCAAAATCAGGTCAAA
Found at i:8015192 original size:18 final size:18
Alignment explanation
Indices: 8015167--8015220 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
8015157 ATGGGGGTTG
8015167 ATTTTTTTTTAAAAAA-A
1 ATTTTTTTTTAAAAAACA
*
8015184 ATATTTTTTTAAAAAATACA
1 AT-TTTTTTTTAAAAA-ACA
8015204 ATTTTTATTTTAAAAAA
1 ATTTTT-TTTTAAAAAA
8015221 TAAAAAAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
17 2 0.06
18 12 0.39
19 6 0.19
20 11 0.35
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (18 bp):
ATTTTTTTTTAAAAAACA
Found at i:8015208 original size:17 final size:17
Alignment explanation
Indices: 8015171--8015209 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
8015161 GGGTTGATTT
* *
8015171 TTTTTTAAAAAAAATAT
1 TTTTTTAAAAAAAACAA
*
8015188 TTTTTTAAAAAATACAA
1 TTTTTTAAAAAAAACAA
8015205 TTTTT
1 TTTTT
8015210 ATTTTAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (17 bp):
TTTTTTAAAAAAAACAA
Found at i:8015216 original size:21 final size:19
Alignment explanation
Indices: 8015167--8015224 Score: 75
Period size: 21 Copynumber: 3.1 Consensus size: 19
8015157 ATGGGGGTTG
8015167 ATTTTTTTTT-AAAAA-AA
1 ATTTTTTTTTAAAAAATAA
*
8015184 ATATTTTTTTAAAAAATACA
1 ATTTTTTTTTAAAAAATA-A
8015204 ATTTTTATTTTAAAAAATAA
1 ATTTTT-TTTTAAAAAATAA
8015224 A
1 A
8015225 AAAAGTATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
17 9 0.26
18 5 0.14
19 1 0.03
20 8 0.23
21 12 0.34
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (19 bp):
ATTTTTTTTTAAAAAATAA
Found at i:8019127 original size:196 final size:190
Alignment explanation
Indices: 8018799--8019182 Score: 606
Period size: 196 Copynumber: 2.0 Consensus size: 190
8018789 GAATACCTCA
* * *
8018799 ACTATAGGGTTACTTATGTCAAACCTATGATGGCGATGGCTATCTGTAAACTCACTTGAACAAGA
1 ACTATAGGGTGACTTATGTCAAACCTATGATGGCGATGGCTATCTATAAACTCACCTGAACAAGA
8018864 TTGTTATAACTGTTGGAGCAAATTTGGCTTTTGGTAAATCGTGTGGGACTATTTAGAGGTGATCA
66 TTGTTATAACTGTTGGAGCAAATTTGGCTTTTGGTAAATCGTGTGGGACTATTTAGAGGTGATCA
* ** *
8018929 AAACAAGGCTCGACTCGGAAAACTGATTTTTTCGACTCGACTCGACTCGAAATGACTTTG
131 AAACAAGACTCGACTCAAAAAACCGATTTTTTCGACTCGACTCGACTCGAAATGACTTTG
8018989 ACTATAGGGTGACTTATGTCAAACCTATGATGGCGATGGCGATGGCTATCTATAAACTCACCTGA
1 ACTATAGGGTGACTTATGTCAAACC--T-AT---GATGGCGATGGCTATCTATAAACTCACCTGA
*
8019054 ACAAGATTGTTATAACTGTTGGAGCAAGTTTGGCTTTTGGTAAATCGTGTGGGACTATTTAGAGG
60 ACAAGATTGTTATAACTGTTGGAGCAAATTTGGCTTTTGGTAAATCGTGTGGGACTATTTAGAGG
*** *
8019119 TGATCAAAAGTCGACTCGACTCAAAAAACCGATTTTTTCGACTCGACTCGACTTGAAATGACTT
125 TGATCAAAACAAGACTCGACTCAAAAAACCGATTTTTTCGACTCGACTCGACTCGAAATGACTT
8019183 CGAGTTGTAA
Statistics
Matches: 176, Mismatches: 12, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
190 24 0.14
192 1 0.01
193 2 0.01
196 149 0.85
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (190 bp):
ACTATAGGGTGACTTATGTCAAACCTATGATGGCGATGGCTATCTATAAACTCACCTGAACAAGA
TTGTTATAACTGTTGGAGCAAATTTGGCTTTTGGTAAATCGTGTGGGACTATTTAGAGGTGATCA
AAACAAGACTCGACTCAAAAAACCGATTTTTTCGACTCGACTCGACTCGAAATGACTTTG
Found at i:8019404 original size:2 final size:2
Alignment explanation
Indices: 8019399--8019433 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
8019389 AATGGATTGC
8019399 TA TA 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 TA TA T
8019434 GTATTGTATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8020336 original size:3 final size:3
Alignment explanation
Indices: 8020328--8020361 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
8020318 TTGCCTTTAC
8020328 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
8020362 GATTAGATCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:8027842 original size:26 final size:26
Alignment explanation
Indices: 8027811--8027894 Score: 96
Period size: 26 Copynumber: 3.2 Consensus size: 26
8027801 TTCATAAATC
**
8027811 TATGACAAACATTTATGACACGCATT
1 TATGACACGCATTTATGACACGCATT
* * * * *
8027837 TATGACGCGTATTTATGACGCACGTT
1 TATGACACGCATTTATGACACGCATT
*
8027863 TATGACACGCATTTATGACACGAATT
1 TATGACACGCATTTATGACACGCATT
8027889 TATGAC
1 TATGAC
8027895 GCTCATTGCG
Statistics
Matches: 45, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 45 1.00
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (26 bp):
TATGACACGCATTTATGACACGCATT
Found at i:8027850 original size:13 final size:13
Alignment explanation
Indices: 8027820--8027894 Score: 96
Period size: 13 Copynumber: 5.8 Consensus size: 13
8027810 CTATGACAAA
8027820 CATTTATGACACG
1 CATTTATGACACG
*
8027833 CATTTATGACGCG
1 CATTTATGACACG
* * *
8027846 TATTTATGACGCA
1 CATTTATGACACG
*
8027859 CGTTTATGACACG
1 CATTTATGACACG
8027872 CATTTATGACACG
1 CATTTATGACACG
*
8027885 AATTTATGAC
1 CATTTATGAC
8027895 GCTCATTGCG
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 53 1.00
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.33
Consensus pattern (13 bp):
CATTTATGACACG
Found at i:8027865 original size:39 final size:39
Alignment explanation
Indices: 8027822--8027896 Score: 132
Period size: 39 Copynumber: 1.9 Consensus size: 39
8027812 ATGACAAACA
* *
8027822 TTTATGACACGCATTTATGACGCGTATTTATGACGCACG
1 TTTATGACACGCATTTATGACACGAATTTATGACGCACG
8027861 TTTATGACACGCATTTATGACACGAATTTATGACGC
1 TTTATGACACGCATTTATGACACGAATTTATGACGC
8027897 TCATTGCGCG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (39 bp):
TTTATGACACGCATTTATGACACGAATTTATGACGCACG
Found at i:8028065 original size:2 final size:2
Alignment explanation
Indices: 8028058--8028086 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
8028048 TGTCGTAAAT
8028058 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8028087 GATTGACAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8034868 original size:24 final size:24
Alignment explanation
Indices: 8034818--8034869 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
8034808 GACCTTCTAA
* * *
8034818 TAATAATATTGATATTGATAGTTC
1 TAATAATATTGACATTGATAATAC
*
8034842 TAATAATGTTGACATTGATAATAC
1 TAATAATATTGACATTGATAATAC
8034866 TAAT
1 TAAT
8034870 GCTTTTGATG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.40, C:0.06, G:0.12, T:0.42
Consensus pattern (24 bp):
TAATAATATTGACATTGATAATAC
Found at i:8038376 original size:26 final size:26
Alignment explanation
Indices: 8038347--8038412 Score: 132
Period size: 26 Copynumber: 2.5 Consensus size: 26
8038337 TGATAAAAAC
8038347 TCGACTCGACTCGAAAATGGATTTTT
1 TCGACTCGACTCGAAAATGGATTTTT
8038373 TCGACTCGACTCGAAAATGGATTTTT
1 TCGACTCGACTCGAAAATGGATTTTT
8038399 TCGACTCGACTCGA
1 TCGACTCGACTCGA
8038413 TTCGAAAAAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.32
Consensus pattern (26 bp):
TCGACTCGACTCGAAAATGGATTTTT
Found at i:8038418 original size:31 final size:30
Alignment explanation
Indices: 8038345--8038420 Score: 106
Period size: 26 Copynumber: 2.6 Consensus size: 30
8038335 GGTGATAAAA
8038345 ACTCGACTCGACTCGAAAATGGATTTTTTCG
1 ACTCGACTCGA-TCGAAAATGGATTTTTTCG
8038376 ACTCGA--C--TCGAAAATGGATTTTTTCG
1 ACTCGACTCGATCGAAAATGGATTTTTTCG
8038402 ACTCGACTCGATTCGAAAA
1 ACTCGACTCGA-TCGAAAA
8038421 ACTCGACTCG
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
26 25 0.62
28 1 0.03
29 1 0.03
31 13 0.32
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.30
Consensus pattern (30 bp):
ACTCGACTCGATCGAAAATGGATTTTTTCG
Found at i:8038662 original size:2 final size:2
Alignment explanation
Indices: 8038657--8038685 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8038647 AATGGATTGT
8038657 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 T
8038686 GTATGTATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8043641 original size:27 final size:26
Alignment explanation
Indices: 8043590--8043643 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 26
8043580 ATGGTCTGAC
*
8043590 GTGGCAGTTTCTAGAAGGTTCAGTCA
1 GTGGCAGTTTCTAGAAGATTCAGTCA
8043616 GTGGCAGTTTTCTAGAAGA-TCTAGTCA
1 GTGGCAG-TTTCTAGAAGATTC-AGTCA
8043643 G
1 G
8043644 CTTGCCTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 9 0.36
27 16 0.64
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.31
Consensus pattern (26 bp):
GTGGCAGTTTCTAGAAGATTCAGTCA
Found at i:8047926 original size:14 final size:14
Alignment explanation
Indices: 8047907--8047933 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8047897 TCAAAATTCG
8047907 ACTCGACTCGAAAA
1 ACTCGACTCGAAAA
8047921 ACTCGACTCGAAA
1 ACTCGACTCGAAA
8047934 TGACTTCGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.30, G:0.15, T:0.15
Consensus pattern (14 bp):
ACTCGACTCGAAAA
Found at i:8048802 original size:51 final size:51
Alignment explanation
Indices: 8048726--8048855 Score: 206
Period size: 51 Copynumber: 2.5 Consensus size: 51
8048716 TTTGATTGTG
8048726 TGTTCGATTCATGTCGAATTCAAAATCTTAACTCCAGAACAGAAGGTTGCC
1 TGTTCGATTCATGTCGAATTCAAAATCTTAACTCCAGAACAGAAGGTTGCC
* * * *
8048777 TGTTCTATTCAAGTCGAATTCAAAATCATAACTCCAGAACAGAAGGTTGCG
1 TGTTCGATTCATGTCGAATTCAAAATCTTAACTCCAGAACAGAAGGTTGCC
* *
8048828 TGTTCGATTCATGTAGAGTTCAAAATCT
1 TGTTCGATTCATGTCGAATTCAAAATCT
8048856 CGAAATAGGC
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 70 1.00
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (51 bp):
TGTTCGATTCATGTCGAATTCAAAATCTTAACTCCAGAACAGAAGGTTGCC
Found at i:8049944 original size:15 final size:15
Alignment explanation
Indices: 8049926--8049957 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
8049916 ACAAGATTCC
8049926 ACATGTTTGGATTAT
1 ACATGTTTGGATTAT
8049941 ACATGTTTGGATTAT
1 ACATGTTTGGATTAT
8049956 AC
1 AC
8049958 GTTTCTATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.28, C:0.09, G:0.19, T:0.44
Consensus pattern (15 bp):
ACATGTTTGGATTAT
Found at i:8050515 original size:25 final size:25
Alignment explanation
Indices: 8050487--8050543 Score: 105
Period size: 25 Copynumber: 2.3 Consensus size: 25
8050477 TTTGTTTGTA
8050487 TGTTTGTGGTGCAGCAATTTCCTAG
1 TGTTTGTGGTGCAGCAATTTCCTAG
*
8050512 TGTTTGTGGTGCAGCAGTTTCCTAG
1 TGTTTGTGGTGCAGCAATTTCCTAG
8050537 TGTTTGT
1 TGTTTGT
8050544 TATGCTTTGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.12, C:0.14, G:0.30, T:0.44
Consensus pattern (25 bp):
TGTTTGTGGTGCAGCAATTTCCTAG
Found at i:8051970 original size:64 final size:63
Alignment explanation
Indices: 8051899--8052020 Score: 174
Period size: 64 Copynumber: 1.9 Consensus size: 63
8051889 TAAAACATCT
8051899 TAAATCCTAATTAAAACACTTAAAA-CTATTTAAAATAAAATACCTAAAAAATAATATAATATTC
1 TAAATCCTAATTAAAACAC-TAAAACCTATTTAAAATAAAATACCTAAAAAA-AATATAATATTC
* ** * *
8051963 TAAATCCTAATTAAAATACTAAAACCTATTTAATTTAAAATACTTAAAACAAATATAA
1 TAAATCCTAATTAAAACACTAAAACCTATTTAAAATAAAATACCTAAAAAAAATATAA
8052021 AATATAAAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
63 12 0.23
64 40 0.77
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (63 bp):
TAAATCCTAATTAAAACACTAAAACCTATTTAAAATAAAATACCTAAAAAAAATATAATATTC
Found at i:8051990 original size:19 final size:19
Alignment explanation
Indices: 8051934--8052072 Score: 58
Period size: 19 Copynumber: 7.2 Consensus size: 19
8051924 CTATTTAAAA
**
8051934 TAAAATACCTAAAAAATAAT
1 TAAAATA-CTAAAACCTAAT
* * *
8051954 ATAATATTCTAAATCCTAAT
1 -TAAAATACTAAAACCTAAT
8051974 TAAAATACTAAAACCTATTTAATT
1 TAAAATACTAAAACC----TAA-T
*
8051998 TAAAATACTTAAAA-CAAAT
1 TAAAATAC-TAAAACCTAAT
8052017 ATAAAATA-T-AAA---AA-
1 -TAAAATACTAAAACCTAAT
* * *
8052031 TAATATCCTAAAACTTAAT
1 TAAAATACTAAAACCTAAT
*
8052050 TAAAATACTAAAACCTATT
1 TAAAATACTAAAACCTAAT
8052069 TAAA
1 TAAA
8052073 CTAAAATACA
Statistics
Matches: 90, Mismatches: 15, Indels: 28
0.68 0.11 0.21
Matches are distributed among these distances:
13 5 0.06
14 1 0.01
15 5 0.06
17 3 0.03
18 3 0.03
19 32 0.36
20 18 0.20
21 5 0.06
23 3 0.03
24 10 0.11
25 5 0.06
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.32
Consensus pattern (19 bp):
TAAAATACTAAAACCTAAT
Found at i:8052093 original size:76 final size:75
Alignment explanation
Indices: 8051954--8052096 Score: 198
Period size: 76 Copynumber: 1.9 Consensus size: 75
8051944 AAAAAATAAT
* * ** *
8051954 ATAATATTCTAAATCCTAATTAAAATACTAAAACCTATTTAATTTAAAATACTTAAAACAAATAT
1 ATAATATCCTAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAATAC-TAAAAAAAATAT
8052019 AAAATATAAAA
65 AAAATATAAAA
*
8052030 ATAATATCCTAAAACTTAATTAAAATACTAAAACCTATTTAAACTAAAATAC-AAAGATAAAATA
1 ATAATATCCTAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAATACTAAA-A-AAAATA
8052094 TAA
64 TAA
8052097 TGTTTAAAAT
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
74 3 0.05
75 1 0.02
76 55 0.93
ACGTcount: A:0.57, C:0.11, G:0.01, T:0.31
Consensus pattern (75 bp):
ATAATATCCTAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAATACTAAAAAAAATATA
AAATATAAAA
Found at i:8053679 original size:16 final size:16
Alignment explanation
Indices: 8053658--8053689 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
8053648 GAACCAAATC
8053658 TGTTTTTTTCTGCACT
1 TGTTTTTTTCTGCACT
8053674 TGTTTTTTTCTGCACT
1 TGTTTTTTTCTGCACT
8053690 GCATTGTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.19, G:0.12, T:0.62
Consensus pattern (16 bp):
TGTTTTTTTCTGCACT
Done.