Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008128.1 Hibiscus syriacus cultivar Beakdansim tig00110683_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: 4987688
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 20
Found at i:2350216 original size:7 final size:7
Alignment explanation
Indices: 2350204--2350241 Score: 51
Period size: 8 Copynumber: 5.3 Consensus size: 7
2350194 CATACATGTA
2350204 TTTGCAT
1 TTTGCAT
2350211 TTTGCAT
1 TTTGCAT
2350218 CTTTGCAT
1 -TTTGCAT
2350226 CTTTGCAT
1 -TTTGCAT
2350234 TTT-CAT
1 TTTGCAT
2350240 TT
1 TT
2350242 ATATTTTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 5 0.17
7 10 0.33
8 15 0.50
ACGTcount: A:0.13, C:0.18, G:0.11, T:0.58
Consensus pattern (7 bp):
TTTGCAT
Found at i:2350224 original size:8 final size:8
Alignment explanation
Indices: 2350204--2350233 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
2350194 CATACATGTA
2350204 TTTGCAT-
1 TTTGCATC
2350211 TTTGCATC
1 TTTGCATC
2350219 TTTGCATC
1 TTTGCATC
2350227 TTTGCAT
1 TTTGCAT
2350234 TTTCATTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 7 0.32
8 15 0.68
ACGTcount: A:0.13, C:0.20, G:0.13, T:0.53
Consensus pattern (8 bp):
TTTGCATC
Found at i:2350232 original size:16 final size:15
Alignment explanation
Indices: 2350204--2350241 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
2350194 CATACATGTA
2350204 TTTGCATTTTGCATC
1 TTTGCATTTTGCATC
2350219 TTTGCATCTTTGCAT-
1 TTTGCAT-TTTGCATC
2350234 TTT-CATTT
1 TTTGCATTT
2350242 ATATTTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 2 0.09
14 3 0.14
15 10 0.45
16 7 0.32
ACGTcount: A:0.13, C:0.18, G:0.11, T:0.58
Consensus pattern (15 bp):
TTTGCATTTTGCATC
Found at i:2350309 original size:6 final size:6
Alignment explanation
Indices: 2350300--2350366 Score: 53
Period size: 6 Copynumber: 10.3 Consensus size: 6
2350290 ACATTCACAT
* * * *
2350300 ATTTAC ATTTGC ATTTGC ATTTTGC ATTTTTGC ATTTGT ATTTAC ATTTTC
1 ATTTGC ATTTGC ATTTGC A-TTTGC A--TTTGC ATTTGC ATTTGC ATTTGC
2350351 ATTTTTGC ATTTGC AT
1 A--TTTGC ATTTGC AT
2350367 CTTGGCATAA
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
6 33 0.65
7 6 0.12
8 12 0.24
ACGTcount: A:0.19, C:0.13, G:0.10, T:0.57
Consensus pattern (6 bp):
ATTTGC
Found at i:2350360 original size:26 final size:27
Alignment explanation
Indices: 2350305--2350366 Score: 99
Period size: 26 Copynumber: 2.3 Consensus size: 27
2350295 CACATATTTA
*
2350305 CATTTGCATTTGCATTTTGCATTTTTG
1 CATTTGCATTTACATTTTGCATTTTTG
*
2350332 CATTTGTATTTACATTTT-CATTTTTG
1 CATTTGCATTTACATTTTGCATTTTTG
2350358 CATTTGCAT
1 CATTTGCAT
2350367 CTTGGCATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 16 0.50
27 16 0.50
ACGTcount: A:0.18, C:0.15, G:0.11, T:0.56
Consensus pattern (27 bp):
CATTTGCATTTACATTTTGCATTTTTG
Found at i:2353057 original size:16 final size:17
Alignment explanation
Indices: 2353033--2353068 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
2353023 ATACTTGAAG
2353033 AAAGAAAAAAAAAGGGA
1 AAAGAAAAAAAAAGGGA
2353050 AAAG-AAAAAAAAGGGA
1 AAAGAAAAAAAAAGGGA
2353066 AAA
1 AAA
2353069 AGGAAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (17 bp):
AAAGAAAAAAAAAGGGA
Found at i:2353550 original size:29 final size:30
Alignment explanation
Indices: 2353518--2353583 Score: 89
Period size: 32 Copynumber: 2.2 Consensus size: 30
2353508 AGAGTCTGGA
*
2353518 AACAAC-AAGTATCTCTACGAGATGAGCAT
1 AACAACAAAGTATCTCTACAAGATGAGCAT
*
2353547 AACAACGATAAGTATTTCTACAAGATGAGCAT
1 AACAAC-A-AAGTATCTCTACAAGATGAGCAT
2353579 AACAA
1 AACAA
2353584 TCATTTCTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
29 6 0.19
32 26 0.81
ACGTcount: A:0.45, C:0.18, G:0.15, T:0.21
Consensus pattern (30 bp):
AACAACAAAGTATCTCTACAAGATGAGCAT
Found at i:2357579 original size:22 final size:20
Alignment explanation
Indices: 2357554--2357616 Score: 81
Period size: 22 Copynumber: 3.0 Consensus size: 20
2357544 ACATCTACAT
2357554 TCTTCAAAGATGATAGAATTTC
1 TCTTCAAAGATGATAG-A-TTC
2357576 TCTTCAAAGATGATAGATTC
1 TCTTCAAAGATGATAGATTC
*
2357596 TCTTTACAAAGATGAAAGATT
1 TC-TT-CAAAGATGATAGATT
2357617 TATTGGATTT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
20 5 0.13
21 3 0.08
22 30 0.79
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (20 bp):
TCTTCAAAGATGATAGATTC
Found at i:2358326 original size:45 final size:45
Alignment explanation
Indices: 2358262--2358699 Score: 707
Period size: 45 Copynumber: 9.8 Consensus size: 45
2358252 ATTTCCCACA
* *
2358262 ATCCGTAAGCCCTTTAGTGCAGGATGTTTTCAAAACCTTCAGGTC
1 ATCCGTAAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCGGGTC
2358307 ATCCGTAAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCGGGTC
1 ATCCGTAAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCGGGTC
2358352 ATCCGTAAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCGGGTC
1 ATCCGTAAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCGGGTC
*
2358397 ATCCGTAAGCCCTTCAGTGTAGGATGTTTTCAAAACCTTCGGGTC
1 ATCCGTAAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCGGGTC
*
2358442 ATCTGTAAGCCCTTCAGTGCAGGATGTTTTCAAAACC-TCGGGTC
1 ATCCGTAAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCGGGTC
* *
2358486 AACCGTAAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCGGGTT
1 ATCCGTAAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCGGGTC
* *
2358531 ATCCATAAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCGGGTT
1 ATCCGTAAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCGGGTC
* * * * *
2358576 ATCCATAATCCTTTTAGTGCATGATGTTTTCAAAACCTTCGGGTC
1 ATCCGTAAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCGGGTC
* *
2358621 ATCTGTAAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTTGGGTC
1 ATCCGTAAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCGGGTC
* * *
2358666 ATCTGTAAGCCCTTTAGTGCAGGCTGTTTTCAAA
1 ATCCGTAAGCCCTTCAGTGCAGGATGTTTTCAAA
2358700 TGAGATTTTA
Statistics
Matches: 368, Mismatches: 24, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
44 42 0.11
45 326 0.89
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.32
Consensus pattern (45 bp):
ATCCGTAAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCGGGTC
Found at i:2358654 original size:224 final size:224
Alignment explanation
Indices: 2358264--2358699 Score: 737
Period size: 224 Copynumber: 1.9 Consensus size: 224
2358254 TTCCCACAAT
* *
2358264 CCGTAAGCCCTTTAGTGCAGGATGTTTTCAAAACCTTCAGGTCATCCGTAAGCCCTTCAGTGCAG
1 CCGTAAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCAGGTCATCCATAAGCCCTTCAGTGCAG
*
2358329 GATGTTTTCAAAACCTTCGGGTCATCCGTAAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCGG
66 GATGTTTTCAAAACCTTCGGGTCATCCATAAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCGG
*
2358394 GTCATCCGTAAGCCCTTCAGTGTAGGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAG
131 GTCATCCGTAAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAG
2358459 TGCAGGATGTTTTCAAAACCTCGGGTCAA
196 TGCAGGATGTTTTCAAAACCTCGGGTCAA
* *
2358488 CCGTAAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCGGGTTATCCATAAGCCCTTCAGTGCAG
1 CCGTAAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCAGGTCATCCATAAGCCCTTCAGTGCAG
* * * * *
2358553 GATGTTTTCAAAACCTTCGGGTTATCCATAATCCTTTTAGTGCATGATGTTTTCAAAACCTTCGG
66 GATGTTTTCAAAACCTTCGGGTCATCCATAAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCGG
* * *
2358618 GTCATCTGTAAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTTGGGTCATCTGTAAGCCCTTTAG
131 GTCATCCGTAAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAG
*
2358683 TGCAGGCTGTTTTCAAA
196 TGCAGGATGTTTTCAAA
2358700 TGAGATTTTA
Statistics
Matches: 197, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
224 197 1.00
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.31
Consensus pattern (224 bp):
CCGTAAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCAGGTCATCCATAAGCCCTTCAGTGCAG
GATGTTTTCAAAACCTTCGGGTCATCCATAAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCGG
GTCATCCGTAAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAG
TGCAGGATGTTTTCAAAACCTCGGGTCAA
Found at i:2358963 original size:3 final size:3
Alignment explanation
Indices: 2358955--2359024 Score: 68
Period size: 3 Copynumber: 22.0 Consensus size: 3
2358945 TAGTTTACTT
* *
2358955 TTA TTA TTA TTA TTA TTA TTAA TTA TTA TTA TTA TTA ATA TCA TATA
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA T-TA
* *
2359002 TTA TATA TACA TTA TTC TTA TTA
1 TTA T-TA T-TA TTA TTA TTA TTA
2359025 AATAAAATAC
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
3 45 0.80
4 11 0.20
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:2360771 original size:24 final size:23
Alignment explanation
Indices: 2360744--2360788 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
2360734 TAGTCATATA
2360744 AATATATATATATTGTTTAATAAT
1 AATATATATATATT-TTTAATAAT
* *
2360768 AATATTTATTTATTTTTAATA
1 AATATATATATATTTTTAATA
2360789 TCGAAGAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (23 bp):
AATATATATATATTTTTAATAAT
Found at i:2362672 original size:21 final size:21
Alignment explanation
Indices: 2362646--2362685 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
2362636 CTCTCTTTTG
*
2362646 TTTTATTGTAGGATTCGATCC
1 TTTTATTGTAAGATTCGATCC
2362667 TTTTATTGTAAGATTCGAT
1 TTTTATTGTAAGATTCGAT
2362686 TATGGTCGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.10, G:0.17, T:0.50
Consensus pattern (21 bp):
TTTTATTGTAAGATTCGATCC
Found at i:2368896 original size:18 final size:19
Alignment explanation
Indices: 2368849--2368896 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
2368839 TGAATTGTTC
*
2368849 GAAATGACTGAATTAAATG
1 GAAATGACTGAATCAAATG
*
2368868 GAAA-GATTGAATCAAAT-
1 GAAATGACTGAATCAAATG
2368885 GAAATGACTGAA
1 GAAATGACTGAA
2368897 ATATCCTCGA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 4 0.16
18 17 0.68
19 4 0.16
ACGTcount: A:0.50, C:0.06, G:0.21, T:0.23
Consensus pattern (19 bp):
GAAATGACTGAATCAAATG
Found at i:2399709 original size:23 final size:23
Alignment explanation
Indices: 2399683--2399738 Score: 112
Period size: 23 Copynumber: 2.4 Consensus size: 23
2399673 AAAAATAATT
2399683 AAAAATAATTAAGTGAAAAGTGA
1 AAAAATAATTAAGTGAAAAGTGA
2399706 AAAAATAATTAAGTGAAAAGTGA
1 AAAAATAATTAAGTGAAAAGTGA
2399729 AAAAATAATT
1 AAAAATAATT
2399739 TAAAAATATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.62, C:0.00, G:0.14, T:0.23
Consensus pattern (23 bp):
AAAAATAATTAAGTGAAAAGTGA
Found at i:2401866 original size:12 final size:11
Alignment explanation
Indices: 2401849--2401873 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2401839 GATGAGTAAC
2401849 AAAAAAAAATT
1 AAAAAAAAATT
2401860 AAAAAAAAATT
1 AAAAAAAAATT
2401871 AAA
1 AAA
2401874 TCTAACGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAAAAAAATT
Found at i:2402356 original size:31 final size:31
Alignment explanation
Indices: 2402320--2402378 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
2402310 AACTTAAAAG
*
2402320 AGTTTTGCAATACTGAAATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
2402351 AGTTTTACAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
2402379 CCATACAACT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.42
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:2402913 original size:17 final size:16
Alignment explanation
Indices: 2402850--2402919 Score: 50
Period size: 17 Copynumber: 4.0 Consensus size: 16
2402840 AAATCAAAAT
*
2402850 AATTAAAATAAATATAA
1 AATT-AAATATATATAA
*
2402867 AATTTAATAATATATAA
1 AATTAAAT-ATATATAA
*
2402884 AAATAATTTATATGATATAA
1 AATTAA---ATAT-ATATAA
*
2402904 AATTAAATATCTATAA
1 AATTAAATATATATAA
2402920 TATAATATTA
Statistics
Matches: 42, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
16 8 0.19
17 19 0.45
19 2 0.05
20 13 0.31
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (16 bp):
AATTAAATATATATAA
Found at i:2402972 original size:12 final size:12
Alignment explanation
Indices: 2402955--2403061 Score: 78
Period size: 12 Copynumber: 8.7 Consensus size: 12
2402945 ATTTATTTAA
2402955 AAAATTAATATT
1 AAAATTAATATT
2402967 AAAATTAATATCT
1 AAAATTAATAT-T
*
2402980 ATAATATAATATTAT
1 AAAAT-TAATA-T-T
2402995 AAAATTAATATT
1 AAAATTAATATT
* *
2403007 -TAATTTAT-TT
1 AAAATTAATATT
2403017 AAAAAATTAATATT
1 --AAAATTAATATT
*
2403031 AAAATTAA-AAT
1 AAAATTAATATT
*
2403042 CAAATATAATA-T
1 AAAAT-TAATATT
2403054 AAAATTAA
1 AAAATTAA
2403062 ATATAAAACC
Statistics
Matches: 76, Mismatches: 10, Indels: 19
0.72 0.10 0.18
Matches are distributed among these distances:
10 2 0.03
11 15 0.20
12 28 0.37
13 13 0.17
14 12 0.16
15 6 0.08
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (12 bp):
AAAATTAATATT
Found at i:2402981 original size:64 final size:64
Alignment explanation
Indices: 2402901--2403057 Score: 257
Period size: 64 Copynumber: 2.5 Consensus size: 64
2402891 TTATATGATA
2402901 TAAAATTAAATATCTATAATATAATATTAAAAAAGTAATATTTAATTTATTTAAAAAATTAATAT
1 TAAAATT-AATATCTATAATATAATATTAAAAAAGTAATATTTAATTTATTTAAAAAATTAATAT
* *
2402966 TAAAATTAATATCTATAATATAATATTATAAAATTAATATTTAATTTATTTAAAAAATTAATAT
1 TAAAATTAATATCTATAATATAATATTAAAAAAGTAATATTTAATTTATTTAAAAAATTAATAT
*
2403030 TAAAATTAAAATC-A-AATATAATA-TAAAA
1 TAAAATTAATATCTATAATATAATATTAAAA
2403058 TTAAATATAA
Statistics
Matches: 88, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
61 4 0.05
62 9 0.10
63 1 0.01
64 67 0.76
65 7 0.08
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.41
Consensus pattern (64 bp):
TAAAATTAATATCTATAATATAATATTAAAAAAGTAATATTTAATTTATTTAAAAAATTAATAT
Found at i:2403064 original size:12 final size:12
Alignment explanation
Indices: 2403019--2403069 Score: 54
Period size: 12 Copynumber: 4.3 Consensus size: 12
2403009 ATTTATTTAA
2403019 AAAATT-AATATT
1 AAAATTAAATA-T
2403031 AAAATTAAA-AT
1 AAAATTAAATAT
*
2403042 CAAA-TATAATAT
1 AAAATTA-AATAT
2403054 AAAATTAAATAT
1 AAAATTAAATAT
2403066 AAAA
1 AAAA
2403070 CCTCTTTGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
10 2 0.06
11 6 0.18
12 21 0.64
13 4 0.12
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (12 bp):
AAAATTAAATAT
Found at i:2403920 original size:24 final size:25
Alignment explanation
Indices: 2403875--2403926 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
2403865 TTTTTTAGTT
*
2403875 TAATTTAATATATAAAAATATTA-A
1 TAATTAAATATATAAAAATATTATA
* * *
2403899 TAATTAAATATTTAATATTATTATA
1 TAATTAAATATATAAAAATATTATA
2403924 TAA
1 TAA
2403927 AAATAAATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (25 bp):
TAATTAAATATATAAAAATATTATA
Found at i:2405025 original size:2 final size:2
Alignment explanation
Indices: 2405020--2405049 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2405010 TTTTTAATTG
2405020 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
2405050 CGGAATAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2417476 original size:19 final size:20
Alignment explanation
Indices: 2417452--2417489 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2417442 TTGATTTTAT
2417452 TTGAG-AATTTAGAAGGAAA
1 TTGAGAAATTTAGAAGGAAA
*
2417471 TTGAGAAATTTAGAGGGAA
1 TTGAGAAATTTAGAAGGAA
2417490 TAGAAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.45, C:0.00, G:0.29, T:0.26
Consensus pattern (20 bp):
TTGAGAAATTTAGAAGGAAA
Found at i:2417500 original size:19 final size:20
Alignment explanation
Indices: 2417457--2417500 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
2417447 TTTATTTGAG
* *
2417457 AATTTAGAAGGAAATTGAGA
1 AATTTAGAAGGAAATAGAAA
*
2417477 AATTTAG-AGGGAATAGAAA
1 AATTTAGAAGGAAATAGAAA
2417496 AATTT
1 AATTT
2417501 GGGAAGTTGG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.50, C:0.00, G:0.23, T:0.27
Consensus pattern (20 bp):
AATTTAGAAGGAAATAGAAA
Found at i:2417709 original size:2 final size:2
Alignment explanation
Indices: 2417702--2417736 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
2417692 TTTAATTTTC
2417702 TA TA TA 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 TA TA TA
2417737 GAAATACTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2417938 original size:19 final size:19
Alignment explanation
Indices: 2417914--2417951 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
2417904 GTATATAAAC
*
2417914 TATATATATAACCTATATA
1 TATATATATAAACTATATA
2417933 TATATATATAAACTATATA
1 TATATATATAAACTATATA
2417952 AAGTAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (19 bp):
TATATATATAAACTATATA
Found at i:2417951 original size:13 final size:13
Alignment explanation
Indices: 2417905--2417936 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
2417895 ATGTATATTG
2417905 TATATAAACTATA
1 TATATAAACTATA
*
2417918 TATATAACCTATA
1 TATATAAACTATA
2417931 TATATA
1 TATATA
2417937 TATATAAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (13 bp):
TATATAAACTATA
Found at i:2418514 original size:2 final size:2
Alignment explanation
Indices: 2418452--2418505 Score: 83
Period size: 2 Copynumber: 27.0 Consensus size: 2
2418442 ATAAACCATG
*
2418452 TA TA GTA TA TA TA TA TA TA TA TA TA -A CA TA TA TA TA TA TA TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2418494 TA TA TA TA TA TA
1 TA TA TA TA TA TA
2418506 AACTATATAA
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
1 1 0.02
2 46 0.94
3 2 0.04
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (2 bp):
TA
Found at i:2418514 original size:31 final size:31
Alignment explanation
Indices: 2418426--2418514 Score: 114
Period size: 29 Copynumber: 3.0 Consensus size: 31
2418416 TAAATAATTT
* * *
2418426 TATATA-ATATGTATGTATAAACCATGTATAG
1 TATATATATATATATATATAAA-CATATATAG
2418457 TATATATATATATATATAT-AACATATATA-
1 TATATATATATATATATATAAACATATATAG
2418486 TATATATATATATATATATAAAC-TATATA
1 TATATATATATATATATATAAACATATATA
2418515 AAGTAAATTA
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
29 25 0.47
30 10 0.19
31 8 0.15
32 10 0.19
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.43
Consensus pattern (31 bp):
TATATATATATATATATATAAACATATATAG
Found at i:2418599 original size:7 final size:7
Alignment explanation
Indices: 2418589--2418639 Score: 66
Period size: 7 Copynumber: 7.3 Consensus size: 7
2418579 TAGGTTATAG
2418589 AAACCCT
1 AAACCCT
*
2418596 AAACACT
1 AAACCCT
2418603 AAACCCT
1 AAACCCT
*
2418610 AAACACT
1 AAACCCT
*
2418617 AAACCAT
1 AAACCCT
*
2418624 AAATCCT
1 AAACCCT
2418631 AAACCCT
1 AAACCCT
2418638 AA
1 AA
2418640 TATAAATGGA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.51, C:0.33, G:0.00, T:0.16
Consensus pattern (7 bp):
AAACCCT
Found at i:2418608 original size:14 final size:14
Alignment explanation
Indices: 2418589--2418639 Score: 77
Period size: 14 Copynumber: 3.6 Consensus size: 14
2418579 TAGGTTATAG
2418589 AAACCCTAAACACT
1 AAACCCTAAACACT
2418603 AAACCCTAAACACT
1 AAACCCTAAACACT
*
2418617 AAACCATAAATC-CT
1 AAACCCTAAA-CACT
2418631 AAACCCTAA
1 AAACCCTAA
2418640 TATAAATGGA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
14 33 0.97
15 1 0.03
ACGTcount: A:0.51, C:0.33, G:0.00, T:0.16
Consensus pattern (14 bp):
AAACCCTAAACACT
Found at i:2419021 original size:556 final size:558
Alignment explanation
Indices: 2417905--2419508 Score: 2127
Period size: 556 Copynumber: 2.9 Consensus size: 558
2417895 ATGTATATTG
2417905 TATATA-AAC-TATATATATAACCTATATATATATATATAAACTATATAAAGTAAATTACTTATA
1 TATATATAACATATATATAT-A-CTATATATATATATATAAACTATATAAAGTAAATTACTTATA
*
2417968 TAGTTTATAGAAACACTATGCATAAACTATATAAAGTAATAAAATATATAGTTTATAGAAACCCT
64 TAGTTTATAGAAACACTATGCATAAACTATATAAAGTAATAAAATATATAGCTTATAGAAACCCT
** * * *
2418033 AAATCATAACACTTAAACCCTAAACTTTAAATCATAAA-CCATAAACCCTGATATAAATAGACTA
129 AAA-C---ACA--TAAACCCTAAACACTAAACCATAAATCC-TAAACCCTAATATAAATGGACTA
* *
2418097 GCACTAATGTATATATATTTGTAATAAAAGAGTGGGCTTATGTATTGGGCCTATGTAAACTAATC
187 GCACTAATGCATATATATTTGTAATAAAAGAGTGGGCTTATGTATTGGGCCTATGTAAACTAATA
* * *
2418162 TAAATGGACTAGCATTATTGCAAATGGACTTATTTTTTAGTTTTATTATTACTTATTCATAACAA
252 TAAATGGACTAGCAATATTGCAAATAGACTTA-TTTTTGGTTTTATTATTACTTATTCATAACAA
*
2418227 CAAAATAAATGGGCTATTAATGTGAATTAACCTAACATGCAACTAAAATACTAATTGTGCAAATG
316 CAAAATAAATGGGCTATTAATGTGAATTAACCTAACATGCAACTAAAATACTAATTATGCAAATG
*
2418292 AAATTAATATGACATGTACTACTATTTATGAACCATATAATATGCAATGTAACATACTAATTATT
381 AAATTAATATGACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTAATTATT
* *
2418357 TAACACATAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTAT-TAAT-TTTATTAAA
446 TAACACCTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATATAATATATATT-AA
*** * *
2418420 TAATTTTATATAATATGTATGTATAAACCATGTATAGTATATATATATA
510 TAATACCATATAATATGTATATATAAACCATATATAGTATATATATATA
2418469 TATATATAACATATATATATA-TATATATATATATATAAACTATATAAAGTAAATTACTTATATA
1 TATATATAACATATATATATACTATATATATATATATAAACTATATAAAGTAAATTACTTATATA
* *
2418533 GTTTATAGAAACACTATGCATAAACTATATAAAGTAATAAAGTATATAGGTTATAGAAACCCTAA
66 GTTTATAGAAACACTATGCATAAACTATATAAAGTAATAAAATATATAGCTTATAGAAACCCTAA
2418598 ACAC-TAAACCCTAAACACTAAACCATAAATCCTAAACCCTAATATAAATGGACTAGCACTAATG
131 ACACATAAACCCTAAACACTAAACCATAAATCCTAAACCCTAATATAAATGGACTAGCACTAATG
* * *
2418662 CATATATATTTGTAATAAAAGAGTGGGTTTATGTATTGAGCCTATGTAAACTAATGTAAATGGAC
196 CATATATATTTGTAATAAAAGAGTGGGCTTATGTATTGGGCCTATGTAAACTAATATAAATGGAC
* * *
2418727 TAGCAATAATGCAAATAGACTTATTTTTGGGTTTTATTATTACTTATTAAAAACAACAAAATAAA
261 TAGCAATATTGCAAATAGACTTATTTTT-GGTTTTATTATTACTTATTCATAACAACAAAATAAA
* * *
2418792 TGGGCTATTAATGTGAATTAACCTAACATGCATCTAAAATTCTAATTATGCAAATGAAATTAATT
325 TGGGCTATTAATGTGAATTAACCTAACATGCAACTAAAATACTAATTATGCAAATGAAATTAATA
*
2418857 TGACGTGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTAATTATTTAACACCTA
390 TGACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTAATTATTTAACACCTA
*
2418922 ATTAATCATGTTTTATATATTTTACATTTAAATAATTTTATATAATATATATGT-ATAA-ACCAT
455 ATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATATAATATATAT-TAATAATACCAT
* *
2418985 GT-ATA-GTATATATAAACTATATATA-TAACCTATATATATA
519 ATAATATGTATATATAAACCATATATAGT-A--TATATATATA
* * * *
2419025 TATATATAA-ACTATATA-A-AGTAAAT-TACT-TATATAGA-T-TAT--AG-AAA-CAC-TATG
1 TATATATAACA-TATATATATACTATATATA-TATATATAAACTATATAAAGTAAATTACTTAT-
*** * * * * ** * * * *
2419078 CATAAACTATA-TAA-AGTA---ATAAAGTATAT--AGTTTATAGAAACCCTAAACCTTAAATCA
63 -ATAGTTTATAGAAACACTATGCATAAACTATATAAAG-TAATA-AAA-TATATAGCTTATA-GA
* * * * *
2419136 TAACACCTAAAC-CATAAACGCTAAACACTAAACCTTAAATCATAAACTCTAATATAAATGAACT
123 -AAC-CCTAAACACATAAACCCTAAACACTAAACCATAAATCCTAAACCCTAATATAAATGGACT
2419200 AG-----ATGCATATATATTTGTAATAAAAGAGTGGGCTTATGTATTGGGCCTATGTAAACTAAT
186 AGCACTAATGCATATATATTTGTAATAAAAGAGTGGGCTTATGTATTGGGCCTATGTAAACTAAT
* * *
2419260 ATAAATGGACTAGCACTATTGCAAATAGGCTTATTTTTGATTTTATTATTACTTATTCATAACAA
251 ATAAATGGACTAGCAATATTGCAAATAGACTTATTTTTGGTTTTATTATTACTTATTCATAACAA
*
2419325 CAAAATAAATGGGCTATGAATGTGAATTAACCTAACATGCAACTAAAATACTAATTATGCAAATG
316 CAAAATAAATGGGCTATTAATGTGAATTAACCTAACATGCAACTAAAATACTAATTATGCAAATG
*
2419390 AAATTAATATGACATG---TACTATTTATGAACTATATAATATGCAATGTGACATACTAATTATT
381 AAATTAATATGACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTAATTATT
*
2419452 TAACTCCTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATATAATAT
446 TAACACCTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATATAATAT
2419509 GTCTATTTAT
Statistics
Matches: 945, Mismatches: 73, Indels: 69
0.87 0.07 0.06
Matches are distributed among these distances:
539 100 0.11
542 102 0.11
543 94 0.10
544 12 0.01
545 7 0.01
546 1 0.00
547 10 0.01
548 58 0.06
549 10 0.01
550 2 0.00
552 3 0.00
553 2 0.00
554 28 0.03
555 15 0.02
556 357 0.38
557 10 0.01
558 4 0.00
559 3 0.00
562 1 0.00
563 107 0.11
564 6 0.01
565 4 0.00
566 9 0.01
ACGTcount: A:0.43, C:0.12, G:0.09, T:0.36
Consensus pattern (558 bp):
TATATATAACATATATATATACTATATATATATATATAAACTATATAAAGTAAATTACTTATATA
GTTTATAGAAACACTATGCATAAACTATATAAAGTAATAAAATATATAGCTTATAGAAACCCTAA
ACACATAAACCCTAAACACTAAACCATAAATCCTAAACCCTAATATAAATGGACTAGCACTAATG
CATATATATTTGTAATAAAAGAGTGGGCTTATGTATTGGGCCTATGTAAACTAATATAAATGGAC
TAGCAATATTGCAAATAGACTTATTTTTGGTTTTATTATTACTTATTCATAACAACAAAATAAAT
GGGCTATTAATGTGAATTAACCTAACATGCAACTAAAATACTAATTATGCAAATGAAATTAATAT
GACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTAATTATTTAACACCTAA
TTAATCATGTTTTATATAATTTACATTTAAATAATTTTATATAATATATATTAATAATACCATAT
AATATGTATATATAAACCATATATAGTATATATATATA
Found at i:2419041 original size:13 final size:13
Alignment explanation
Indices: 2418991--2419024 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
2418981 CCATGTATAG
2418991 TATATATAAACTA
1 TATATATAAACTA
*
2419004 TATATATAACCTA
1 TATATATAAACTA
2419017 TATATATA
1 TATATATA
2419025 TATATATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (13 bp):
TATATATAAACTA
Found at i:2419146 original size:21 final size:20
Alignment explanation
Indices: 2419120--2419187 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 20
2419110 TTATAGAAAC
2419120 CCTAAACCTTAAATCATAACA
1 CCTAAACCTTAAATCATAA-A
* *
2419141 CCTAAACCATAAA-CGCTAAA
1 CCTAAACCTTAAATC-ATAAA
2419161 CACTAAACCTTAAATCATAAA
1 C-CTAAACCTTAAATCATAAA
2419182 CTCTAA
1 C-CTAA
2419188 TATAAATGAA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.08
21 35 0.90
22 1 0.03
ACGTcount: A:0.49, C:0.28, G:0.01, T:0.22
Consensus pattern (20 bp):
CCTAAACCTTAAATCATAAA
Found at i:2419151 original size:14 final size:13
Alignment explanation
Indices: 2419116--2419187 Score: 56
Period size: 14 Copynumber: 5.2 Consensus size: 13
2419106 TAGTTTATAG
*
2419116 AAACCCTAAACCTT
1 AAACCATAAACC-T
*
2419130 AAATCATAACACCT
1 AAACCATAA-ACCT
2419144 AAACCATAAACGCT
1 AAACCATAAAC-CT
2419158 AAA-CACTAAACCTT
1 AAACCA-TAAACC-T
*
2419172 AAATCATAAACTCT
1 AAACCATAAAC-CT
2419186 AA
1 AA
2419188 TATAAATGAA
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
13 5 0.10
14 38 0.78
15 6 0.12
ACGTcount: A:0.50, C:0.28, G:0.01, T:0.21
Consensus pattern (13 bp):
AAACCATAAACCT
Found at i:2419853 original size:23 final size:24
Alignment explanation
Indices: 2419827--2419876 Score: 84
Period size: 23 Copynumber: 2.1 Consensus size: 24
2419817 TTATTTTTTC
*
2419827 TTTATATAGATTAAACTATA-TAA
1 TTTATATAAATTAAACTATATTAA
2419850 TTTATATAAATTAAACTATATTAA
1 TTTATATAAATTAAACTATATTAA
2419874 TTT
1 TTT
2419877 TCCTTTGCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 19 0.76
24 6 0.24
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (24 bp):
TTTATATAAATTAAACTATATTAA
Found at i:2419947 original size:13 final size:13
Alignment explanation
Indices: 2419915--2419941 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2419905 TAATTTACAT
2419915 TTAAATAATTTTA
1 TTAAATAATTTTA
2419928 TTAAATAATTTTA
1 TTAAATAATTTTA
2419941 T
1 T
2419942 ATAATATGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTAAATAATTTTA
Found at i:2420158 original size:16 final size:16
Alignment explanation
Indices: 2420137--2420195 Score: 73
Period size: 16 Copynumber: 3.7 Consensus size: 16
2420127 CGAATCATTT
2420137 ACAGGTCAGGTTAAAA
1 ACAGGTCAGGTTAAAA
* * *
2420153 ACAGGTTAGGTTCATA
1 ACAGGTCAGGTTAAAA
*
2420169 ACAGGTCAGGTTGAAA
1 ACAGGTCAGGTTAAAA
*
2420185 ACAAGTCAGGT
1 ACAGGTCAGGT
2420196 AATACCAGTT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.37, C:0.14, G:0.27, T:0.22
Consensus pattern (16 bp):
ACAGGTCAGGTTAAAA
Found at i:2420335 original size:21 final size:21
Alignment explanation
Indices: 2420309--2420348 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
2420299 GATGCAGGTC
2420309 GGGTTCAGATCCACAATTTCT
1 GGGTTCAGATCCACAATTTCT
*
2420330 GGGTTCATATCCACAATTT
1 GGGTTCAGATCCACAATTT
2420349 GAAGGTCCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (21 bp):
GGGTTCAGATCCACAATTTCT
Found at i:2421156 original size:13 final size:13
Alignment explanation
Indices: 2421140--2421197 Score: 50
Period size: 13 Copynumber: 4.5 Consensus size: 13
2421130 ATAATAAAAT
2421140 ATTAATTATGATA
1 ATTAATTATGATA
2421153 ATTAAATTA--ATA
1 ATT-AATTATGATA
* *
2421165 AATATATT-TAATA
1 ATTA-ATTATGATA
2421178 TATTAATTATGATA
1 -ATTAATTATGATA
2421192 ATTAAT
1 ATTAAT
2421198 ATACTTTATA
Statistics
Matches: 36, Mismatches: 3, Indels: 12
0.71 0.06 0.24
Matches are distributed among these distances:
11 1 0.03
12 8 0.22
13 15 0.42
14 12 0.33
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (13 bp):
ATTAATTATGATA
Found at i:2421196 original size:21 final size:21
Alignment explanation
Indices: 2421130--2421200 Score: 71
Period size: 21 Copynumber: 3.6 Consensus size: 21
2421120 TTTAAATGTT
*
2421130 ATAA-TAAAATATTAATTATG
1 ATAATTAATATATTAATTATG
*
2421150 ATAATT-A-A-ATTAATAAAT-
1 ATAATTAATATATTAAT-TATG
*
2421168 ATATTTAATATATTAATTATG
1 ATAATTAATATATTAATTATG
2421189 ATAATTAATATA
1 ATAATTAATATA
2421201 CTTTATAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
18 11 0.27
19 4 0.10
20 8 0.20
21 18 0.44
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (21 bp):
ATAATTAATATATTAATTATG
Found at i:2421210 original size:16 final size:15
Alignment explanation
Indices: 2421189--2421334 Score: 80
Period size: 14 Copynumber: 10.1 Consensus size: 15
2421179 ATTAATTATG
2421189 ATAATTAATATACTTT
1 ATAATT-ATATACTTT
2421205 ATAATTA-ATAC-TT
1 ATAATTATATACTTT
*
2421218 ATATTTATATACTTT
1 ATAATTATATACTTT
*
2421233 AATACTT-TATA-TTT
1 -ATAATTATATACTTT
*
2421247 AATACTT-T-TA-TTAT
1 -ATAATTATATACTT-T
*
2421261 ATAGTT-TAATACTTT
1 ATAATTAT-ATACTTT
* *
2421276 -TTATTATATATTTT
1 ATAATTATATACTTT
*
2421290 AGTACTTATATACTTT
1 A-TAATTATATACTTT
*
2421306 ATATTTA-ATAC-TT
1 ATAATTATATACTTT
*
2421319 ATATTTATATACTTT
1 ATAATTATATACTTT
2421334 A
1 A
2421335 ATGCTTATAT
Statistics
Matches: 108, Mismatches: 10, Indels: 25
0.76 0.07 0.17
Matches are distributed among these distances:
13 27 0.25
14 37 0.34
15 19 0.18
16 25 0.23
ACGTcount: A:0.36, C:0.07, G:0.01, T:0.55
Consensus pattern (15 bp):
ATAATTATATACTTT
Found at i:2421239 original size:36 final size:36
Alignment explanation
Indices: 2421198--2421336 Score: 159
Period size: 36 Copynumber: 4.1 Consensus size: 36
2421188 GATAATTAAT
2421198 ATACTTTATAATTAATACTTATATTTATATACTTTA
1 ATACTTTATAATTAATACTTATATTTATATACTTTA
* * *
2421234 ATACTTTATATTTAATACTTTTA-TTATATAGTTTA
1 ATACTTTATAATTAATACTTATATTTATATACTTTA
* *
2421269 ATACTTT-TTATT-ATA--TAT-TTTA-GTAC-TTA
1 ATACTTTATAATTAATACTTATATTTATATACTTTA
*
2421298 TATACTTTATATTTAATACTTATATTTATATACTTTA
1 -ATACTTTATAATTAATACTTATATTTATATACTTTA
2421335 AT
1 AT
2421337 GCTTATATTC
Statistics
Matches: 83, Mismatches: 11, Indels: 18
0.74 0.10 0.16
Matches are distributed among these distances:
29 3 0.04
30 9 0.11
31 8 0.10
32 3 0.04
33 3 0.04
34 6 0.07
35 22 0.27
36 26 0.31
37 3 0.04
ACGTcount: A:0.35, C:0.07, G:0.01, T:0.56
Consensus pattern (36 bp):
ATACTTTATAATTAATACTTATATTTATATACTTTA
Found at i:2421270 original size:73 final size:66
Alignment explanation
Indices: 2421167--2421336 Score: 159
Period size: 65 Copynumber: 2.5 Consensus size: 66
2421157 AATTAATAAA
* *
2421167 TATATTTAATA-TATTAATTATGATAATTAATATACTTTATAATTAATACTTATATTTATATACT
1 TATATTTAATACT-TTTATTAT-ATATTTAATATACTTT-TAATT-ATA--TAT-TTTA-ATACT
2421231 T-TAATACTT
58 TAT-ATACTT
* *
2421240 TATATTTAATACTTTTATTATATAGTTT-A-ATACTTTTTATTATATATTTTAGTACTTATATAC
1 TATATTTAATACTTTTATTATATA-TTTAATATACTTTTAATTATATATTTTAATACTTATATAC
2421303 TT
65 TT
*
2421305 TATATTTAATACTTATATTTATATACTTTAAT
1 TATATTTAATACTTTTA-TTATATA-TTTAAT
2421337 GCTTATATTC
Statistics
Matches: 85, Mismatches: 6, Indels: 17
0.79 0.06 0.16
Matches are distributed among these distances:
65 27 0.32
66 15 0.18
67 4 0.05
69 3 0.04
70 4 0.05
71 7 0.08
72 4 0.05
73 20 0.24
74 1 0.01
ACGTcount: A:0.37, C:0.06, G:0.02, T:0.55
Consensus pattern (66 bp):
TATATTTAATACTTTTATTATATATTTAATATACTTTTAATTATATATTTTAATACTTATATACT
T
Found at i:2421322 original size:13 final size:14
Alignment explanation
Indices: 2421196--2421332 Score: 67
Period size: 13 Copynumber: 9.6 Consensus size: 14
2421186 ATGATAATTA
*
2421196 ATATACTTTATAATT
1 ATATAC-TTATATTT
2421211 A-ATACTTATATTT
1 ATATACTTATATTT
2421224 ATATACTTTAATACTTT
1 ATATAC-TT-ATA-TTT
2421241 ATAT--TTAATACTTT
1 ATATACTT-ATA-TTT
2421255 -TAT--TATATAGTTT
1 ATATACT-TATA-TTT
*
2421268 A-ATACTT-TTTATT
1 ATATACTTATAT-TT
* *
2421281 ATATATTTTAGTACTT
1 ATATA-CTTA-TATTT
2421297 ATATACTTTATATTT
1 ATATAC-TTATATTT
2421312 A-ATACTTATATTT
1 ATATACTTATATTT
2421325 ATATACTT
1 ATATACTT
2421333 TAATGCTTAT
Statistics
Matches: 99, Mismatches: 8, Indels: 31
0.72 0.06 0.22
Matches are distributed among these distances:
12 1 0.01
13 33 0.33
14 33 0.33
15 11 0.11
16 13 0.13
17 8 0.08
ACGTcount: A:0.35, C:0.07, G:0.01, T:0.56
Consensus pattern (14 bp):
ATATACTTATATTT
Found at i:2421334 original size:22 final size:22
Alignment explanation
Indices: 2421217--2421390 Score: 123
Period size: 22 Copynumber: 7.9 Consensus size: 22
2421207 AATTAATACT
2421217 TATATTTATATACTT-TAATACTT-
1 TATATTTA-ATACTTAT-ATA-TTA
2421240 TATATTTAATACTT-T-TATTA
1 TATATTTAATACTTATATATTA
*
2421260 TATAGTTTAATACTT-TTTATTA
1 TATA-TTTAATACTTATATATTA
*
2421282 TATATTTTAGTACTTATATACTT-
1 TATA-TTTAATACTTATATA-TTA
2421305 TATATTTAATACTTATAT-TTA
1 TATATTTAATACTTATATATTA
* *
2421326 TATACTTTAATGCTTATAT-TCA
1 TATA-TTTAATACTTATATATTA
* * *
2421348 AACACTTTATTACTT-TATATTA
1 TATA-TTTAATACTTATATATTA
* *
2421370 TATATTTTATAATTTATATAT
1 TATATTTAAT-ACTTATATAT
2421391 AAAGTACCAA
Statistics
Matches: 125, Mismatches: 16, Indels: 20
0.78 0.10 0.12
Matches are distributed among these distances:
19 2 0.02
20 8 0.06
21 22 0.18
22 71 0.57
23 20 0.16
24 2 0.02
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.56
Consensus pattern (22 bp):
TATATTTAATACTTATATATTA
Found at i:2421374 original size:65 final size:64
Alignment explanation
Indices: 2421221--2421376 Score: 172
Period size: 65 Copynumber: 2.4 Consensus size: 64
2421211 AATACTTATA
* * * * *
2421221 TTTATATACTTTAATACTTTATATTTAATACTTTTATTATATAGTTTAATACTTTTTATTATATA
1 TTTAT-TACTTT-ATACTTTATATTTAATACTTATATTATATACTTTAATACTTTATATTAAACA
*
2421286 T
64 C
* *
2421287 TTTAGTACTTATATACTTTATATTTAATACTTATATTTATATACTTTAATGC-TTATATTCAAAC
1 TTTATTACTT-TATACTTTATATTTAATACTTATA-TTATATACTTTAATACTTTATATT-AAAC
2421351 AC
63 AC
2421353 TTTATTACTTTATA-TTATATATTT
1 TTTATTACTTTATACTT-TATATTT
2421377 TATAATTTAT
Statistics
Matches: 77, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
64 2 0.03
65 44 0.57
66 31 0.40
ACGTcount: A:0.33, C:0.08, G:0.02, T:0.56
Consensus pattern (64 bp):
TTTATTACTTTATACTTTATATTTAATACTTATATTATATACTTTAATACTTTATATTAAACAC
Found at i:2422424 original size:34 final size:35
Alignment explanation
Indices: 2422380--2422457 Score: 88
Period size: 34 Copynumber: 2.2 Consensus size: 35
2422370 CTTAAAATCT
* *
2422380 TAATACATGCATCAT-ACATACATAT-ATACATACA
1 TAATATATGCAT-ATAACATACATATCATACACACA
**
2422414 TAATATATGCATATAACATATGTATCATACACACA
1 TAATATATGCATATAACATACATATCATACACACA
2422449 TCAATATAT
1 T-AATATAT
2422458 TTTTATAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
33 2 0.05
34 19 0.51
35 9 0.24
36 7 0.19
ACGTcount: A:0.46, C:0.18, G:0.04, T:0.32
Consensus pattern (35 bp):
TAATATATGCATATAACATACATATCATACACACA
Found at i:2422556 original size:4 final size:4
Alignment explanation
Indices: 2422547--2423451 Score: 1035
Period size: 4 Copynumber: 226.0 Consensus size: 4
2422537 ATGCATCATG
2422547 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
2422595 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
2422643 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
2422691 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA TATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * *
2422739 TATA CATA CATA CATA CATA TATA TATA TGCATA TATA CATA CTTA CATA
1 CATA CATA CATA CATA CATA CATA CATA --CATA CATA CATA CATA CATA
* * * * *
2422789 CATG CATA CATA CATA CATA CATT CGTA CGTA CATA CATA TATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
2422837 CATA CATA CATA CATA CATA CATA CAT- -ATA TATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * * *
2422883 CATA CATA CATA CACA CATA CACA CATA AATA CATA TATA TATG CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * *
2422931 CATG CATA CATA CATA CATA CACA CATA TATA CATA C--A CATA CACA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * *
2422977 CATA CATA CATA CATA TATA CATA CATA CATA TATG CATA CATA CATG
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* *
2423025 CATA CATA CATA CATA CACA CATA CACA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * *
2423073 CATA CATA CACA CATA CATA CATA CATG CATA CATA CACA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * * *
2423121 CATA CATA CATA CATG CACA CATA TATA TATA CATA CATG CACA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * * *
2423169 TATA CATA CATG CACA CATA CATA CACA CATA CATA CACA CATA CACA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * *
2423217 CATA CATA CATA CATG CATA CATA CATA CATG CATG CATG CATA CATG
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * ** * * *
2423265 TATA CACGA CATA CATA CATA CACG CATA CATG CATA CATG CATG CATA
1 CATA CA-TA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
** * ** ** * * *
2423314 CACG CATA CATG CATA CACG CATA CACG CATA CATG CACA CATG CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* ** * ** * **
2423362 CATG CATA CACG CATA CATG CATA CACG CATA CATG CATA CACG CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* ** *
2423410 CATG CATA CACG CATA CATG CATTA CATA CATA CATA TCATA
1 CATA CATA CATA CATA CATA CA-TA CATA CATA CATA -CATA
2423452 AAATCAAATT
Statistics
Matches: 751, Mismatches: 141, Indels: 17
0.83 0.16 0.02
Matches are distributed among these distances:
2 4 0.01
4 734 0.98
5 10 0.01
6 3 0.00
ACGTcount: A:0.46, C:0.26, G:0.04, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:2423592 original size:2 final size:2
Alignment explanation
Indices: 2423528--2423575 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
2423518 CACATTATGC
2423528 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
2423570 AT AT AT
1 AT AT AT
2423576 GCATGTAATA
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:2423636 original size:28 final size:28
Alignment explanation
Indices: 2423592--2423670 Score: 97
Period size: 28 Copynumber: 2.8 Consensus size: 28
2423582 AATACATATA
*
2423592 TTAGGGTTTAGAGTTTAGGGTTTAACGT
1 TTAGGGTTTAGAGTTTAGGGTTTAAAGT
* *
2423620 TTATGGTTTA-ACGTTTATGGTTTAAAGT
1 TTAGGGTTTAGA-GTTTAGGGTTTAAAGT
* *
2423648 TTAGGGTTTAGGGTTTAAGGTTT
1 TTAGGGTTTAGAGTTTAGGGTTT
2423671 CTATAAACTA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
27 1 0.02
28 42 0.98
ACGTcount: A:0.22, C:0.03, G:0.29, T:0.47
Consensus pattern (28 bp):
TTAGGGTTTAGAGTTTAGGGTTTAAAGT
Found at i:2423662 original size:21 final size:21
Alignment explanation
Indices: 2423592--2423670 Score: 77
Period size: 21 Copynumber: 3.8 Consensus size: 21
2423582 AATACATATA
*
2423592 TTAGGGTTTAGAGTTTAGGGT
1 TTAGGGTTTAAAGTTTAGGGT
** ** **
2423613 TTAACGTTTATGGTTTAACGT
1 TTAGGGTTTAAAGTTTAGGGT
*
2423634 TTATGGTTTAAAGTTTAGGGT
1 TTAGGGTTTAAAGTTTAGGGT
*
2423655 TTAGGGTTTAAGGTTT
1 TTAGGGTTTAAAGTTT
2423671 CTATAAACTA
Statistics
Matches: 44, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.22, C:0.03, G:0.29, T:0.47
Consensus pattern (21 bp):
TTAGGGTTTAAAGTTTAGGGT
Found at i:2423669 original size:7 final size:7
Alignment explanation
Indices: 2423604--2423670 Score: 62
Period size: 7 Copynumber: 9.6 Consensus size: 7
2423594 AGGGTTTAGA
*
2423604 GTTTAGG
1 GTTTAAG
*
2423611 GTTTAAC
1 GTTTAAG
*
2423618 GTTTATG
1 GTTTAAG
*
2423625 GTTTAAC
1 GTTTAAG
*
2423632 GTTTATG
1 GTTTAAG
*
2423639 GTTTAAA
1 GTTTAAG
*
2423646 GTTTAGG
1 GTTTAAG
*
2423653 GTTTAGG
1 GTTTAAG
2423660 GTTTAAG
1 GTTTAAG
2423667 GTTT
1 GTTT
2423671 CTATAAACTA
Statistics
Matches: 47, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
7 47 1.00
ACGTcount: A:0.21, C:0.03, G:0.28, T:0.48
Consensus pattern (7 bp):
GTTTAAG
Found at i:2423670 original size:14 final size:14
Alignment explanation
Indices: 2423592--2423657 Score: 89
Period size: 14 Copynumber: 4.7 Consensus size: 14
2423582 AATACATATA
2423592 TTAGGGTTTAGA-GT
1 TTAGGGTTTA-ACGT
2423606 TTAGGGTTTAACGT
1 TTAGGGTTTAACGT
*
2423620 TTATGGTTTAACGT
1 TTAGGGTTTAACGT
* *
2423634 TTATGGTTTAAAGT
1 TTAGGGTTTAACGT
2423648 TTAGGGTTTA
1 TTAGGGTTTA
2423658 GGGTTTAAGG
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
13 1 0.02
14 47 0.98
ACGTcount: A:0.23, C:0.03, G:0.27, T:0.47
Consensus pattern (14 bp):
TTAGGGTTTAACGT
Found at i:2423763 original size:15 final size:15
Alignment explanation
Indices: 2423743--2423781 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 15
2423733 TAATTTACTT
2423743 TATATAGGTTATATATA
1 TATATA-GTT-TATATA
2423760 TATATAGTTTATATA
1 TATATAGTTTATATA
2423775 TACTATA
1 TA-TATA
2423782 CATGGTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 8 0.38
16 7 0.33
17 6 0.29
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.49
Consensus pattern (15 bp):
TATATAGTTTATATA
Found at i:2423765 original size:17 final size:18
Alignment explanation
Indices: 2423743--2423781 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
2423733 TAATTTACTT
2423743 TATATAGGTTATATATA-
1 TATATAGGTTATATATAC
*
2423760 TATATAGTTTATATATAC
1 TATATAGGTTATATATAC
2423778 TATA
1 TATA
2423782 CATGGTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.49
Consensus pattern (18 bp):
TATATAGGTTATATATAC
Found at i:2423789 original size:20 final size:20
Alignment explanation
Indices: 2423752--2423797 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
2423742 TTATATAGGT
*
2423752 TATATA-TATATATAGTTTA
1 TATATACTATACATAGTTTA
*
2423771 TATATACTATACATGGTTTA
1 TATATACTATACATAGTTTA
*
2423791 TACATAC
1 TATATAC
2423798 ATATTATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.46
Consensus pattern (20 bp):
TATATACTATACATAGTTTA
Found at i:2424027 original size:12 final size:12
Alignment explanation
Indices: 2424010--2424044 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
2424000 ATTTTGTTGT
*
2424010 TATGCATGCATG
1 TATGCATACATG
2424022 TATGCATACATG
1 TATGCATACATG
*
2424034 CATGCATACAT
1 TATGCATACAT
2424045 ACATATCATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.31
Consensus pattern (12 bp):
TATGCATACATG
Found at i:2424184 original size:2 final size:2
Alignment explanation
Indices: 2424132--2424167 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
2424122 CACATTATGC
2424132 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
2424168 GCATGTAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2424199 original size:7 final size:7
Alignment explanation
Indices: 2424184--2424256 Score: 58
Period size: 7 Copynumber: 10.4 Consensus size: 7
2424174 AATACATATA
*
2424184 TTAGGGT
1 TTAGAGT
2424191 TTAGAGT
1 TTAGAGT
*
2424198 TTAGGGT
1 TTAGAGT
2424205 TTA-ATGT
1 TTAGA-GT
*
2424212 TTATAGT
1 TTAGAGT
*
2424219 TTAAAGT
1 TTAGAGT
*
2424226 TTAGGGT
1 TTAGAGT
*
2424233 TTAAAGT
1 TTAGAGT
*
2424240 TTAGGGT
1 TTAGAGT
*
2424247 TTAGGGT
1 TTAGAGT
2424254 TTA
1 TTA
2424257 AGGTTTCTAT
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
7 53 0.98
8 1 0.02
ACGTcount: A:0.25, C:0.00, G:0.29, T:0.47
Consensus pattern (7 bp):
TTAGAGT
Found at i:2424219 original size:21 final size:21
Alignment explanation
Indices: 2424188--2424262 Score: 78
Period size: 21 Copynumber: 3.6 Consensus size: 21
2424178 CATATATTAG
*
2424188 GGTTTAGAGTTTAGGGTTTAA
1 GGTTTAAAGTTTAGGGTTTAA
* * ** *
2424209 TGTTTATAGTTTAAAGTTTAG
1 GGTTTAAAGTTTAGGGTTTAA
*
2424230 GGTTTAAAGTTTAGGGTTTAG
1 GGTTTAAAGTTTAGGGTTTAA
*
2424251 GGTTTAAGGTTT
1 GGTTTAAAGTTT
2424263 CTATAAACTA
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.47
Consensus pattern (21 bp):
GGTTTAAAGTTTAGGGTTTAA
Found at i:2424257 original size:592 final size:595
Alignment explanation
Indices: 2423421--2424611 Score: 2104
Period size: 598 Copynumber: 2.0 Consensus size: 595
2423411 ATGCATACAC
* *
2423421 GCATACATGCATTACATACATACATATCATAAAATCAAATTATAACTTCATTATTTATTGTTGTA
1 GCATACATGCATTACATACATACATATCATAAAATCAAATTATAACTTCATTATTTACTGATGTA
2423486 TTTTTTATGTATGATACACATATATTAATACACACATTATGCATATATATATATATATATATATA
66 TTTTTTATGTATGATACACATATATTAATACACACATTATGC----------A-ATATATATATA
2423551 TATATATATATATATATATATATATGCATGTAATACATATATTAGGGTTTAGAGTTTAGGGTTTA
120 TATATATATATATATATATATATATGCATGTAATACATATATTAGGGTTTAGAGTTTAGGGTTTA
* * *
2423616 ACGTTTATGGTTTAACGTTTATGGTTTAAAGTTTAGGGTTTAGGGTTTAAGGTTTCTATAAACTA
185 ACGTTTATAGTTTAAAGTTTAGGGTTTAAAGTTTAGGGTTTAGGGTTTAAGGTTTCTATAAACTA
2423681 TATACTTATTACTTTATATAGTTTATGCATAGTGTTCTATAAGA-TATATAAGTAATTTACTTTA
250 TATACTTATTACTTTATATAGTTTATGCATAGTGTTCTATAA-ACTATATAAGTAATTTACTTTA
2423745 TATAGG-T-TATATATATATATAGTTTATATATACTATACATGGTTTATACATACATATTATATA
314 TATAGGTTATATATATATATATAGTTTATATATACTATACATGGTTTATACATACATATTATATA
*
2423808 AAATTATTTAATAAAATTAATAAAATTATTTAAATGTAAATTATATAGAACATGAATAATTATGT
379 AAACTATTTAATAAAATTAATAAAATTATTTAAATGTAAATTATATAGAACATGAATAATTATGT
*
2423873 GTTAAATAATTAGTATGTCACATTGCATATTATATGATTCATAAATAGTAGTACATGTCAAATTA
444 GTTAAACAATTAGTATGTCACATTGCATATTATATGATTCATAAATAGTAGTACATGTCAAATTA
*
2423938 ATTTCATTTGCATAATTAGTATTTAGTTGCATGTTATGTTAATTCACATTAATAACCCATTTATT
509 ATTTCATTTGCATAATTAGTATTTAGTTGCATGTTATGTTAATTCACATTAATAACACATTTATT
2424003 TTGTTGTTATGCATGCATGTAT
574 TTGTTGTTATGCATGCATGTAT
*
2424025 GCATACATGCA-TGCATACATACATATCATAAAATCAAATTATAACTTCATTATTTACTGATGTA
1 GCATACATGCATTACATACATACATATCATAAAATCAAATTATAACTTCATTATTTACTGATGTA
2424089 TTTTTTTATGTATGATACACATATATTAATACACACATTATGC-ATATATATATATATATATATA
66 -TTTTTTATGTATGATACACATATATTAATACACACATTATGCAATATATATATATATATATATA
*
2424153 TATATATATATATATGCATGTAATACATATATTAGGGTTTAGAGTTTAGGGTTTAATGTTTATAG
130 TATATATATATATATGCATGTAATACATATATTAGGGTTTAGAGTTTAGGGTTTAACGTTTATAG
2424218 TTTAAAGTTTAGGGTTTAAAGTTTAGGGTTTAGGGTTTAAGGTTTCTATAAACTATATACTTATT
195 TTTAAAGTTTAGGGTTTAAAGTTTAGGGTTTAGGGTTTAAGGTTTCTATAAACTATATACTTATT
2424283 ACTTTATATAGTTTATGCATAGTGTTCTATAAACTATATAAGTAATTTACTTTATATAGGTTATA
260 ACTTTATATAGTTTATGCATAGTGTTCTATAAACTATATAAGTAATTTACTTTATATAGG---T-
2424348 TATATATATATATATAGTTTATATATACTATACATGGTTTATACATACATATTATATAAAACTAT
321 TATATATATATATATAGTTTATATATACTATACATGGTTTATACATACATATTATATAAAACTAT
2424413 TTAATAAAATTAATAAAATTATTTAAATGTAAATTATATAGAACATGAATAATTATGTGTTAAAC
386 TTAATAAAATTAATAAAATTATTTAAATGTAAATTATATAGAACATGAATAATTATGTGTTAAAC
2424478 AATTAGTATGTCACATTGCATATTATATGATTCATAAATAGTAGTACATGTCAAATTAATTTCAT
451 AATTAGTATGTCACATTGCATATTATATGATTCATAAATAGTAGTACATGTCAAATTAATTTCAT
2424543 TTGCATAATTAGTATTTAGTTGCATGTTATGTTAATTCACATTAATAACACATTTATTTTGTTGT
516 TTGCATAATTAGTATTTAGTTGCATGTTATGTTAATTCACATTAATAACACATTTATTTTGTTGT
2424608 TATG
581 TATG
2424612 AGTAAGTAAT
Statistics
Matches: 569, Mismatches: 10, Indels: 22
0.95 0.02 0.04
Matches are distributed among these distances:
591 1 0.00
592 205 0.36
597 1 0.00
598 259 0.46
603 50 0.09
604 53 0.09
ACGTcount: A:0.38, C:0.08, G:0.11, T:0.44
Consensus pattern (595 bp):
GCATACATGCATTACATACATACATATCATAAAATCAAATTATAACTTCATTATTTACTGATGTA
TTTTTTATGTATGATACACATATATTAATACACACATTATGCAATATATATATATATATATATAT
ATATATATATATATGCATGTAATACATATATTAGGGTTTAGAGTTTAGGGTTTAACGTTTATAGT
TTAAAGTTTAGGGTTTAAAGTTTAGGGTTTAGGGTTTAAGGTTTCTATAAACTATATACTTATTA
CTTTATATAGTTTATGCATAGTGTTCTATAAACTATATAAGTAATTTACTTTATATAGGTTATAT
ATATATATATAGTTTATATATACTATACATGGTTTATACATACATATTATATAAAACTATTTAAT
AAAATTAATAAAATTATTTAAATGTAAATTATATAGAACATGAATAATTATGTGTTAAACAATTA
GTATGTCACATTGCATATTATATGATTCATAAATAGTAGTACATGTCAAATTAATTTCATTTGCA
TAATTAGTATTTAGTTGCATGTTATGTTAATTCACATTAATAACACATTTATTTTGTTGTTATGC
ATGCATGTAT
Found at i:2424262 original size:14 final size:14
Alignment explanation
Indices: 2424184--2424249 Score: 96
Period size: 14 Copynumber: 4.7 Consensus size: 14
2424174 AATACATATA
*
2424184 TTAGGGTTTAGAGT
1 TTAGGGTTTAAAGT
*
2424198 TTAGGGTTTAATGT
1 TTAGGGTTTAAAGT
**
2424212 TTATAGTTTAAAGT
1 TTAGGGTTTAAAGT
2424226 TTAGGGTTTAAAGT
1 TTAGGGTTTAAAGT
2424240 TTAGGGTTTA
1 TTAGGGTTTA
2424250 GGGTTTAAGG
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 45 1.00
ACGTcount: A:0.26, C:0.00, G:0.27, T:0.47
Consensus pattern (14 bp):
TTAGGGTTTAAAGT
Found at i:2424363 original size:23 final size:24
Alignment explanation
Indices: 2424335--2424379 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
2424325 TAATTTACTT
2424335 TATATAGGTTATATATA-TATATA
1 TATATAGGTTATATATACTATATA
*
2424358 TATATAGTTTATATATACTATA
1 TATATAGGTTATATATACTATA
2424380 CATGGTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (24 bp):
TATATAGGTTATATATACTATATA
Found at i:2424776 original size:7 final size:7
Alignment explanation
Indices: 2424747--2424804 Score: 62
Period size: 7 Copynumber: 8.3 Consensus size: 7
2424737 TCTATTTATA
2424747 TTAGGGT
1 TTAGGGT
* *
2424754 TTATGAT
1 TTAGGGT
*
2424761 TTATGGT
1 TTAGGGT
*
2424768 TTAGTGT
1 TTAGGGT
2424775 TTAGGGT
1 TTAGGGT
**
2424782 TTAAAGT
1 TTAGGGT
2424789 TTAGGGT
1 TTAGGGT
2424796 TTAGGGT
1 TTAGGGT
2424803 TT
1 TT
2424805 CTATAAAACT
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 41 1.00
ACGTcount: A:0.19, C:0.00, G:0.31, T:0.50
Consensus pattern (7 bp):
TTAGGGT
Found at i:2424784 original size:21 final size:21
Alignment explanation
Indices: 2424747--2424804 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
2424737 TCTATTTATA
* * **
2424747 TTAGGGTTTATGATTTATGGT
1 TTAGGGTTTAGGGTTTAAAGT
*
2424768 TTAGTGTTTAGGGTTTAAAGT
1 TTAGGGTTTAGGGTTTAAAGT
2424789 TTAGGGTTTAGGGTTT
1 TTAGGGTTTAGGGTTT
2424805 CTATAAAACT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.19, C:0.00, G:0.31, T:0.50
Consensus pattern (21 bp):
TTAGGGTTTAGGGTTTAAAGT
Found at i:2425448 original size:2 final size:2
Alignment explanation
Indices: 2425441--2425672 Score: 78
Period size: 2 Copynumber: 116.0 Consensus size: 2
2425431 ACTTTGAATA
2425441 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT ACT AT AT -T A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT
* * * * * * *
2425482 AT AA AT -T AT AGT TT AT AA ACT AT AT ACT TT TT AT AGT TT AT AC
1 AT AT AT AT AT A-T AT AT AT A-T AT AT A-T AT AT AT A-T AT AT AT
* * *
2425525 AT AT AT AGT TT AC AT AT AT AT AGT TT AT AT AT AT AGT -T CAT AT
1 AT AT AT A-T AT AT AT AT AT AT A-T AT AT AT AT AT A-T AT -AT AT
* * *
2425568 AA AC AT A- AT TT AT AT AT AT A- ACT -T AT A- AT A- AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT
* * * *
2425605 AGT TT AT A- AT AT AA AT AT AGT TT AT AT AT AT AGT TT AT AT AT
1 A-T AT AT AT AT AT AT AT AT A-T AT AT AT AT AT A-T AT AT AT AT
*
2425647 AA ACT -T AT AT -T AT AT AT AT AT -T AT AT
1 AT A-T AT AT AT AT AT AT AT AT AT AT AT AT
2425673 TTTTTCAATT
Statistics
Matches: 169, Mismatches: 33, Indels: 56
0.66 0.13 0.22
Matches are distributed among these distances:
1 14 0.08
2 142 0.84
3 13 0.08
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2425533 original size:15 final size:15
Alignment explanation
Indices: 2425513--2425647 Score: 111
Period size: 15 Copynumber: 9.0 Consensus size: 15
2425503 ATATACTTTT
*
2425513 TATAGTTTATACATA
1 TATAGTTTATATATA
*
2425528 TATAGTTTACATATA
1 TATAGTTTATATATA
2425543 TATAG-TT-TATATA
1 TATAGTTTATATATA
* *
2425556 TATAGTTCATATAAA
1 TATAGTTTATATATA
* *
2425571 CATAATTTATATATA
1 TATAGTTTATATATA
*
2425586 TA-A-CTTATAATAATTA
1 TATAGTTTAT-AT-A-TA
2425602 TATAGTTTATAATATAAA
1 TATAGTTTAT-ATAT--A
2425620 TATAG-TT-TATATA
1 TATAGTTTATATATA
2425633 TATAGTTTATATATA
1 TATAGTTTATATATA
2425648 AACTTATATT
Statistics
Matches: 97, Mismatches: 12, Indels: 22
0.74 0.09 0.17
Matches are distributed among these distances:
13 20 0.21
14 8 0.08
15 46 0.47
16 6 0.06
17 4 0.04
18 13 0.13
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (15 bp):
TATAGTTTATATATA
Found at i:2425635 original size:13 final size:13
Alignment explanation
Indices: 2425513--2425647 Score: 91
Period size: 13 Copynumber: 10.2 Consensus size: 13
2425503 ATATACTTTT
2425513 TATAGTTTATACATA
1 TATAGTTTAT--ATA
2425528 TATAGTTTACATATA
1 TATAGTTT--ATATA
2425543 TATAGTTTATATA
1 TATAGTTTATATA
*
2425556 TATAGTTCATATAAA
1 TATAGTT--TATATA
* *
2425571 CATAATTTATATA
1 TATAGTTTATATA
**
2425584 TATAACTTATA-A
1 TATAGTTTATATA
2425596 TA-A--TTATATA
1 TATAGTTTATATA
* * *
2425606 GTTTA-TAATATAAA
1 -TATAGT-TTATATA
2425620 TATAGTTTATATA
1 TATAGTTTATATA
2425633 TATAGTTTATATA
1 TATAGTTTATATA
2425646 TA
1 TA
2425648 AACTTATATT
Statistics
Matches: 98, Mismatches: 12, Indels: 22
0.74 0.09 0.17
Matches are distributed among these distances:
9 5 0.05
10 1 0.01
11 2 0.02
12 4 0.04
13 49 0.50
14 6 0.06
15 29 0.30
17 2 0.02
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (13 bp):
TATAGTTTATATA
Found at i:2425659 original size:17 final size:16
Alignment explanation
Indices: 2425639--2425673 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
2425629 TATATATAGT
2425639 TTATATATAAACTTATA
1 TTATATATAAA-TTATA
*
2425656 TTATATATATATTATA
1 TTATATATAAATTATA
2425672 TT
1 TT
2425674 TTTTCAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (16 bp):
TTATATATAAATTATA
Found at i:2425671 original size:90 final size:85
Alignment explanation
Indices: 2425441--2425672 Score: 222
Period size: 90 Copynumber: 2.6 Consensus size: 85
2425431 ACTTTGAATA
* * *
2425441 ATATATA-TATATATATATA-TATATATATATAC-TATATTAATATAAATTATAGTTTATAAACT
1 ATATATAGTTTATATATATAGTTTATATATATACTTATATTAATAT-AATTATA-TATATAAACT
* *
2425503 ATATACTTTTTATAGTTTATAC
64 ATATACATTATATAGTTTATAC
* * *
2425525 ATATATAGTTTACATATATATAGTTTATATATATAGTTCATATAAACATAATT-TATATATATAA
1 ATATATAGTTT--ATATATATAGTTTATATATATACTT-ATATTAATATAATTATATATATA-AA
*
2425589 CTTATAATA-ATTATATAGTTTATAAT
62 C-TAT-ATACATTATATAGTTTAT-AC
*
2425615 ATAAATATAGTTTATATATATAGTTTATATATAAACTTATATTATATATATATTATAT
1 AT--ATATAGTTTATATATATAGTTTATATATATACTTATATTA-ATATA-ATTATAT
2425673 TTTTTCAATT
Statistics
Matches: 120, Mismatches: 13, Indels: 22
0.77 0.08 0.14
Matches are distributed among these distances:
84 7 0.06
85 2 0.02
87 14 0.12
88 16 0.13
89 25 0.21
90 41 0.34
91 3 0.03
92 12 0.10
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.48
Consensus pattern (85 bp):
ATATATAGTTTATATATATAGTTTATATATATACTTATATTAATATAATTATATATATAAACTAT
ATACATTATATAGTTTATAC
Found at i:2425729 original size:20 final size:21
Alignment explanation
Indices: 2425704--2425742 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
2425694 TGCAATTTAC
*
2425704 TATATTTTTCA-TTATTTCTT
1 TATATTTTGCATTTATTTCTT
2425724 TATATTTTGCATTTATTTC
1 TATATTTTGCATTTATTTC
2425743 GATTTAATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.21, C:0.10, G:0.03, T:0.67
Consensus pattern (21 bp):
TATATTTTGCATTTATTTCTT
Found at i:2427410 original size:15 final size:15
Alignment explanation
Indices: 2427390--2427428 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
2427380 TAATATGATT
2427390 AATTCGGTTAATGAA
1 AATTCGGTTAATGAA
2427405 AATTCGGTTAATGAA
1 AATTCGGTTAATGAA
*
2427420 AATTTGGTT
1 AATTCGGTT
2427429 CGGTTGGTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (15 bp):
AATTCGGTTAATGAA
Found at i:2432930 original size:13 final size:13
Alignment explanation
Indices: 2432912--2432936 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2432902 TTGAATATAC
2432912 TTAGAAAATCTTT
1 TTAGAAAATCTTT
2432925 TTAGAAAATCTT
1 TTAGAAAATCTT
2432937 AAAATTAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (13 bp):
TTAGAAAATCTTT
Found at i:2434871 original size:23 final size:23
Alignment explanation
Indices: 2434838--2434911 Score: 114
Period size: 23 Copynumber: 3.3 Consensus size: 23
2434828 CCAGAACCCC
*
2434838 AGGGGGTATCGGTTCCCATTCAA
1 AGGGGGAATCGGTTCCCATTCAA
2434861 AGGGGGAATCGGTTCCCATTCAA
1 AGGGGGAATCGGTTCCCATTCAA
* *
2434884 AGGGGGAATCGATTCCCCTTC-A
1 AGGGGGAATCGGTTCCCATTCAA
2434906 AGGGGG
1 AGGGGG
2434912 TATTGATTCC
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
22 7 0.15
23 41 0.85
ACGTcount: A:0.23, C:0.22, G:0.34, T:0.22
Consensus pattern (23 bp):
AGGGGGAATCGGTTCCCATTCAA
Found at i:2434908 original size:22 final size:23
Alignment explanation
Indices: 2434838--2434922 Score: 109
Period size: 23 Copynumber: 3.7 Consensus size: 23
2434828 CCAGAACCCC
* *
2434838 AGGGGGTATCGGTTCCCATTCAA
1 AGGGGGAATCGATTCCCATTCAA
*
2434861 AGGGGGAATCGGTTCCCATTCAA
1 AGGGGGAATCGATTCCCATTCAA
*
2434884 AGGGGGAATCGATTCCCCTTC-A
1 AGGGGGAATCGATTCCCATTCAA
* *
2434906 AGGGGGTATTGATTCCC
1 AGGGGGAATCGATTCCC
2434923 TCTGCCCTAT
Statistics
Matches: 57, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
22 16 0.28
23 41 0.72
ACGTcount: A:0.22, C:0.22, G:0.31, T:0.25
Consensus pattern (23 bp):
AGGGGGAATCGATTCCCATTCAA
Found at i:2440546 original size:13 final size:13
Alignment explanation
Indices: 2440528--2440552 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2440518 TCGAATATAC
2440528 TTAGAAAATCTTT
1 TTAGAAAATCTTT
2440541 TTAGAAAATCTT
1 TTAGAAAATCTT
2440553 AAAAATTCAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (13 bp):
TTAGAAAATCTTT
Found at i:2441616 original size:11 final size:11
Alignment explanation
Indices: 2441600--2441626 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
2441590 AATTATCATA
2441600 CTCAAATTAGT
1 CTCAAATTAGT
2441611 CTCAAATTAGT
1 CTCAAATTAGT
2441622 CTCAA
1 CTCAA
2441627 GTAATGATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.33
Consensus pattern (11 bp):
CTCAAATTAGT
Found at i:2442282 original size:32 final size:33
Alignment explanation
Indices: 2442240--2442303 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
2442230 TACTTTAATT
2442240 TAATATATAATATTA-TTAATA-ATAAAAAATG
1 TAATATATAATATTATTTAATATATAAAAAATG
*
2442271 TAATAATATAATATTATTTTATATATAAAAAAT
1 TAAT-ATATAATATTATTTAATATATAAAAAAT
2442304 CCCTAACTGG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 4 0.14
32 11 0.38
33 5 0.17
34 9 0.31
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (33 bp):
TAATATATAATATTATTTAATATATAAAAAATG
Found at i:2446839 original size:60 final size:60
Alignment explanation
Indices: 2446746--2446865 Score: 152
Period size: 60 Copynumber: 2.0 Consensus size: 60
2446736 CATTTGACAT
* * * * *
2446746 GATGCCTTCAAGCTCCGAGGGGAGGCATTCAACTGCGAGCTTCTTCGACCTCAATGTCGA
1 GATGCCTTCAAGCTCCAAGGGAAGGCATGCAACTACGAGCTTCTTCGACCTAAATGTCGA
* * *
2446806 GATGCCTTCAAG-TTCAATGGGAAGGCATGCAACTACTAGCTTGTTCGACCTAAATGTCGA
1 GATGCCTTCAAGCTCCAA-GGGAAGGCATGCAACTACGAGCTTCTTCGACCTAAATGTCGA
2446866 CATTGTGGAG
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
59 3 0.06
60 48 0.94
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (60 bp):
GATGCCTTCAAGCTCCAAGGGAAGGCATGCAACTACGAGCTTCTTCGACCTAAATGTCGA
Found at i:2451463 original size:19 final size:19
Alignment explanation
Indices: 2451426--2451475 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
2451416 TAATAAAAAG
2451426 TTAATATAATAAAATTTAA
1 TTAATATAATAAAATTTAA
*
2451445 TTAA-ATAATAAATTATTAA
1 TTAATATAATAAAAT-TTAA
*
2451464 TTTATTATAATA
1 -TTAATATAATA
2451476 CATTAAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 9 0.35
19 8 0.31
20 3 0.12
21 6 0.23
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TTAATATAATAAAATTTAA
Found at i:2452244 original size:2 final size:2
Alignment explanation
Indices: 2452200--2452225 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2452190 AGTTATGTGA
2452200 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
2452226 GTTTGTGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2452385 original size:2 final size:2
Alignment explanation
Indices: 2452378--2452464 Score: 174
Period size: 2 Copynumber: 43.5 Consensus size: 2
2452368 TAAATTGAAC
2452378 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
2452420 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
2452462 AT A
1 AT A
2452465 CGAAGAACAA
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 85 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2465992 original size:14 final size:14
Alignment explanation
Indices: 2465973--2466003 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
2465963 CAATGGAACA
2465973 GAGAAGAATATGAG
1 GAGAAGAATATGAG
2465987 GAGAAGAATATGAG
1 GAGAAGAATATGAG
2466001 GAG
1 GAG
2466004 CATATTTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.39, T:0.13
Consensus pattern (14 bp):
GAGAAGAATATGAG
Found at i:2467925 original size:20 final size:20
Alignment explanation
Indices: 2467900--2467961 Score: 76
Period size: 20 Copynumber: 3.2 Consensus size: 20
2467890 AACAAAAGGG
2467900 GGTATCGATACTATGAGGAA
1 GGTATCGATACTATGAGGAA
**
2467920 GGTATCGATAAC-AAAAGG--
1 GGTATCGAT-ACTATGAGGAA
2467938 GGTATCGATACTATGAGGAA
1 GGTATCGATACTATGAGGAA
2467958 GGTA
1 GGTA
2467962 GATACCATTG
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
17 2 0.06
18 13 0.38
20 17 0.50
21 2 0.06
ACGTcount: A:0.37, C:0.10, G:0.31, T:0.23
Consensus pattern (20 bp):
GGTATCGATACTATGAGGAA
Found at i:2467949 original size:38 final size:39
Alignment explanation
Indices: 2467882--2467961 Score: 153
Period size: 38 Copynumber: 2.1 Consensus size: 39
2467872 GATACAAGTA
2467882 GTATCGATAACAAAAGGGGGTATCGATACTATGAGGAAG
1 GTATCGATAACAAAAGGGGGTATCGATACTATGAGGAAG
2467921 GTATCGATAACAAAA-GGGGTATCGATACTATGAGGAAG
1 GTATCGATAACAAAAGGGGGTATCGATACTATGAGGAAG
2467959 GTA
1 GTA
2467962 GATACCATTG
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
38 26 0.63
39 15 0.37
ACGTcount: A:0.39, C:0.10, G:0.30, T:0.21
Consensus pattern (39 bp):
GTATCGATAACAAAAGGGGGTATCGATACTATGAGGAAG
Found at i:2468517 original size:54 final size:54
Alignment explanation
Indices: 2468426--2468689 Score: 393
Period size: 54 Copynumber: 4.9 Consensus size: 54
2468416 AAATTCACTG
* * *
2468426 AATTCATTATATGTTGATGAACAACCATTTCGACACTAAGTGTGCAACTCACGA
1 AATTCATCATATGTTGATGAACAACCATTTCGGCACTAAGTGTGCAACTCACAA
* * * *
2468480 AATTCATCATATGTTGATGAACAAGCGTTTTGGCACTAATTGTGCAACTCACAA
1 AATTCATCATATGTTGATGAACAACCATTTCGGCACTAAGTGTGCAACTCACAA
*
2468534 AATTCATCATATGTTGATGAACAACCATTTCGGCACTAAGTGTGCAACTCACGA
1 AATTCATCATATGTTGATGAACAACCATTTCGGCACTAAGTGTGCAACTCACAA
** * *
2468588 AATTCATCATATGTTGATGAACAACTGTTTCGACACTAAGTTTGCAACTCACAA
1 AATTCATCATATGTTGATGAACAACCATTTCGGCACTAAGTGTGCAACTCACAA
* * *
2468642 AATTTATCATATGTTGATGAACAACCATTTAGGCACTATGTGTGCAAC
1 AATTCATCATATGTTGATGAACAACCATTTCGGCACTAAGTGTGCAAC
2468690 CCATAGAGTT
Statistics
Matches: 186, Mismatches: 24, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 186 1.00
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.31
Consensus pattern (54 bp):
AATTCATCATATGTTGATGAACAACCATTTCGGCACTAAGTGTGCAACTCACAA
Found at i:2468716 original size:108 final size:108
Alignment explanation
Indices: 2468426--2468689 Score: 433
Period size: 108 Copynumber: 2.4 Consensus size: 108
2468416 AAATTCACTG
* *
2468426 AATTCATTATATGTTGATGAACAACCATTTCGACACTAAGTGTGCAACTCACGAAATTCATCATA
1 AATTCATCATATGTTGATGAACAACCATTTCGGCACTAAGTGTGCAACTCACGAAATTCATCATA
* *
2468491 TGTTGATGAACAAGCGTTTTGGCACTAATTGTGCAACTCACAA
66 TGTTGATGAACAAGCGTTTCGACACTAATTGTGCAACTCACAA
2468534 AATTCATCATATGTTGATGAACAACCATTTCGGCACTAAGTGTGCAACTCACGAAATTCATCATA
1 AATTCATCATATGTTGATGAACAACCATTTCGGCACTAAGTGTGCAACTCACGAAATTCATCATA
2468599 TGTTGATGAACAA-CTGTTTCGACACTAAGTT-TGCAACTCACAA
66 TGTTGATGAACAAGC-GTTTCGACACTAA-TTGTGCAACTCACAA
* * *
2468642 AATTTATCATATGTTGATGAACAACCATTTAGGCACTATGTGTGCAAC
1 AATTCATCATATGTTGATGAACAACCATTTCGGCACTAAGTGTGCAAC
2468690 CCATAGAGTT
Statistics
Matches: 147, Mismatches: 7, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
107 1 0.01
108 144 0.98
109 2 0.01
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.31
Consensus pattern (108 bp):
AATTCATCATATGTTGATGAACAACCATTTCGGCACTAAGTGTGCAACTCACGAAATTCATCATA
TGTTGATGAACAAGCGTTTCGACACTAATTGTGCAACTCACAA
Found at i:2468741 original size:162 final size:162
Alignment explanation
Indices: 2468426--2468741 Score: 409
Period size: 162 Copynumber: 2.0 Consensus size: 162
2468416 AAATTCACTG
* *
2468426 AATTCATTATATGTTGATGAACAACCATTTCGACACTAAGTGTGCAACTCACGAAATTCATCATA
1 AATTCATCATATGTTGATGAACAACCATTTCGACACTAAGTGTGCAACTCACAAAATTCATCATA
* * * * *
2468491 TGTTGATGAACAAGCGTTTTGGCACTAATTGTGCAACTCACAAAATTCATCATATGTTGATGAAC
66 TGTTGATGAACAACCATTTAGGCACTAATTGTGCAACCCACAAAATTCATAATATGTTGATGAAC
* *
2468556 AACCATTTCGGCACTAAGTGTGCAACTCACGA
131 AACCATATAGGCACTAAGTGTGCAACTCACGA
** * *
2468588 AATTCATCATATGTTGATGAACAACTGTTTCGACACTAAGTTTGCAACTCACAAAATTTATCATA
1 AATTCATCATATGTTGATGAACAACCATTTCGACACTAAGTGTGCAACTCACAAAATTCATCATA
* * * * *
2468653 TGTTGATGAACAACCATTTAGGCACT-ATGTGTGCAACCCATAGAGTTTATAATATGTTTATGAA
66 TGTTGATGAACAACCATTTAGGCACTAAT-TGTGCAACCCACAAAATTCATAATATGTTGATGAA
** * * *
2468717 TGACCGTATATGCACTATGTGTGCA
130 CAACCATATAGGCACTAAGTGTGCA
2468742 TCGCAACGAA
Statistics
Matches: 130, Mismatches: 23, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
161 2 0.02
162 128 0.98
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.32
Consensus pattern (162 bp):
AATTCATCATATGTTGATGAACAACCATTTCGACACTAAGTGTGCAACTCACAAAATTCATCATA
TGTTGATGAACAACCATTTAGGCACTAATTGTGCAACCCACAAAATTCATAATATGTTGATGAAC
AACCATATAGGCACTAAGTGTGCAACTCACGA
Found at i:2484126 original size:18 final size:18
Alignment explanation
Indices: 2484109--2484142 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2484099 TATTCGAATA
2484109 ATTT-AATCGAATATAAT
1 ATTTAAATCGAATATAAT
2484126 ATTTAAATCGAATATAA
1 ATTTAAATCGAATATAA
2484143 AATCTTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (18 bp):
ATTTAAATCGAATATAAT
Found at i:2484775 original size:54 final size:54
Alignment explanation
Indices: 2484507--2484785 Score: 299
Period size: 54 Copynumber: 5.2 Consensus size: 54
2484497 ATGTGTACTA
* * * * * **
2484507 TAGGCACTATGTGTGCAATTCACGAAATTCATCATATATTGATGAATAACAATT
1 TAGGCACTAAGTGTGCAACTCACGGAATTCATCATATGTTGATGAAAAACCGTT
* * * * * *
2484561 TCA-GCACTAAGTGTGCAACTCACGAAATTCATCTTGTGTTGATGAACAACTGCT
1 T-AGGCACTAAGTGTGCAACTCACGGAATTCATCATATGTTGATGAAAAACCGTT
* * *
2484615 TCGGCACTAAGTGTGCAACTCACAGAATTCATCATATGTTGATGAACAACCGTT
1 TAGGCACTAAGTGTGCAACTCACGGAATTCATCATATGTTGATGAAAAACCGTT
* *
2484669 TCGGCACTAAGTGTGCAACTCATGGAATTCATCATATGTTGATGAAAAACCGTT
1 TAGGCACTAAGTGTGCAACTCACGGAATTCATCATATGTTGATGAAAAACCGTT
* * * * * * ** *
2484723 TAGGCACTATGTGTGCAACCCACGGAGTTCATAATATGTTTATTAATGACCGTA
1 TAGGCACTAAGTGTGCAACTCACGGAATTCATCATATGTTGATGAAAAACCGTT
2484777 TAGGCACTA
1 TAGGCACTA
2484786 CATGTACATC
Statistics
Matches: 193, Mismatches: 30, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
54 192 0.99
55 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (54 bp):
TAGGCACTAAGTGTGCAACTCACGGAATTCATCATATGTTGATGAAAAACCGTT
Found at i:2484775 original size:108 final size:108
Alignment explanation
Indices: 2484507--2484785 Score: 333
Period size: 108 Copynumber: 2.6 Consensus size: 108
2484497 ATGTGTACTA
* * * ** *
2484507 TAGGCACTATGTGTGCAATTCACGAAATTCATCATATATTGATGAATAACAATTTCAGCACTAAG
1 TAGGCACTATGTGTGCAACTCACGGAATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAG
* * * *
2484572 TGTGCAACTCACGAAATTCATCTTGTGTTGATGAACAACTGCT
66 TGTGCAACTCACGAAATTCATCATATGTTGATGAAAAACCGCT
* * * *
2484615 TCGGCACTAAGTGTGCAACTCACAGAATTCATCATATGTTGATGAACAACCGTTTCGGCACTAAG
1 TAGGCACTATGTGTGCAACTCACGGAATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAG
* * *
2484680 TGTGCAACTCATGGAATTCATCATATGTTGATGAAAAACCGTT
66 TGTGCAACTCACGAAATTCATCATATGTTGATGAAAAACCGCT
* * * * * * * *
2484723 TAGGCACTATGTGTGCAACCCACGGAGTTCATAATATGTTTATTAATGACCGTATAGGCACTA
1 TAGGCACTATGTGTGCAACTCACGGAATTCATCATATGTTGATGAATAACCGTTTCGGCACTA
2484786 CATGTACATC
Statistics
Matches: 142, Mismatches: 29, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
108 142 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (108 bp):
TAGGCACTATGTGTGCAACTCACGGAATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAG
TGTGCAACTCACGAAATTCATCATATGTTGATGAAAAACCGCT
Found at i:2501056 original size:81 final size:81
Alignment explanation
Indices: 2500948--2501310 Score: 403
Period size: 81 Copynumber: 4.5 Consensus size: 81
2500938 TCATTTACTT
* ** * ** *
2500948 GCATGATTGACAGTTTTCTGCCAAATGCACAACTAGGTTATTTATCTTTTACTCAATAGTATTGA
1 GCATAATTGACACCTTTATGCCAAATGCACAACTAGGCCATTTATCTGTTACTCAATAGTATTGA
2501013 ACTATTCATCTAACTG
66 ACTATTCATCTAACTG
* * *
2501029 GTATAATTGTCA-CTATTATGCCAAATGCACAACTAGGCCATTTATCTGTTACTCAA-CGTCATT
1 GCATAATTGACACCT-TTATGCCAAATGCACAACTAGGCCATTTATCTGTTACTCAATAGT-ATT
*
2501092 GAA-TCGTTCATCTAACTG
64 GAACT-ATTCATCTAACTG
* * * *
2501110 GCATAATTGATACCTTTCTGCCAAATGCGCAACTAGGCCATTTATCTGTTACTC-ATCGGTATTG
1 GCATAATTGACACCTTTATGCCAAATGCACAACTAGGCCATTTATCTGTTACTCAAT-AGTATTG
2501174 AACCT-TTCATCTAACTG
65 AA-CTATTCATCTAACTG
* * ** ** * *
2501191 GCATAATTGACACATTTCTGCCAAATGCACAGGTAGATCATTTATCTTTTACTCAACAGTATTGA
1 GCATAATTGACACCTTTATGCCAAATGCACAACTAGGCCATTTATCTGTTACTCAATAGTATTGA
* *
2501256 ATTATTCATCTAACTA
66 ACTATTCATCTAACTG
* *
2501272 GCATAATTGACACCTTTATGTCAAATGCACAATTAGGCC
1 GCATAATTGACACCTTTATGCCAAATGCACAACTAGGCC
2501311 TCAAAGGCAC
Statistics
Matches: 237, Mismatches: 35, Indels: 20
0.81 0.12 0.07
Matches are distributed among these distances:
80 6 0.03
81 225 0.95
82 5 0.02
83 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.35
Consensus pattern (81 bp):
GCATAATTGACACCTTTATGCCAAATGCACAACTAGGCCATTTATCTGTTACTCAATAGTATTGA
ACTATTCATCTAACTG
Found at i:2501235 original size:162 final size:162
Alignment explanation
Indices: 2500948--2501310 Score: 455
Period size: 162 Copynumber: 2.2 Consensus size: 162
2500938 TCATTTACTT
* ** ** *
2500948 GCATGATTGACAGTTTTCTGCCAAATGCACAACTAGGTTATTTATCTTTTACTCAATAGTATTGA
1 GCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTTATCTGTTACTCAATAGTATTGA
* * *
2501013 ACTATTCATCTAACTGGTATAATTGTCACTATTATGCCAAATGCACAACTAGGCCATTTATCTGT
66 ACTATTCATCTAACTGGCATAATTGACACTATTATGCCAAATGCACAACTAGACCATTTATCTGT
* *
2501078 TACTCAAC-GTCATTGAATCGTTCATCTAACTG
131 TACTCAACAGT-ATTGAATCATTCATCTAACTA
* * *
2501110 GCATAATTGATACCTTTCTGCCAAATGCGCAACTAGGCCATTTATCTGTTACTC-ATCGGTATTG
1 GCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTTATCTGTTACTCAAT-AGTATTG
* ** *
2501174 AACCT-TTCATCTAACTGGCATAATTGACAC-ATTTCTGCCAAATGCACAGGTAGATCATTTATC
65 AA-CTATTCATCTAACTGGCATAATTGACACTA-TTATGCCAAATGCACAACTAGACCATTTATC
* *
2501237 TTTTACTCAACAGTATTGAATTATTCATCTAACTA
128 TGTTACTCAACAGTATTGAATCATTCATCTAACTA
* * *
2501272 GCATAATTGACACCTTTATGTCAAATGCACAATTAGGCC
1 GCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCC
2501311 TCAAAGGCAC
Statistics
Matches: 172, Mismatches: 25, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
161 3 0.02
162 165 0.96
163 4 0.02
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.35
Consensus pattern (162 bp):
GCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTTATCTGTTACTCAATAGTATTGA
ACTATTCATCTAACTGGCATAATTGACACTATTATGCCAAATGCACAACTAGACCATTTATCTGT
TACTCAACAGTATTGAATCATTCATCTAACTA
Found at i:2501351 original size:68 final size:68
Alignment explanation
Indices: 2501260--2501583 Score: 468
Period size: 68 Copynumber: 4.8 Consensus size: 68
2501250 TATTGAATTA
* * * *
2501260 TTCATCTAACTAGCATAATTGACACCTTTATGTCAAATGCACAATTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
2501325 CCT
66 CCT
* * *
2501328 TTCATCTAATTGGCATAAATGACACCTTTCTGTCAAATGCATAGTTAGGCCTCAAAGACACTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
2501393 CCT
66 CCT
* * *
2501396 TTCATCTAACTGACATAAAGGACACCTTTCTATCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
2501461 CCT
66 CCT
** * *
2501464 TTCATCTAACTACCATAATTGACATCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
2501529 CCT
66 CCT
** * * * *
2501532 TTCATCTATTTGGCATAAATGATACATTTCTATCAAATGCATAGTTAGGCCT
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCT
2501584 ATTAATATTT
Statistics
Matches: 227, Mismatches: 29, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
68 227 1.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (68 bp):
TTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
CCT
Found at i:2502357 original size:20 final size:20
Alignment explanation
Indices: 2502328--2502380 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
2502318 GTTAACAATG
* *
2502328 GTATCCATACCATCCTCATA
1 GTATCGATACCACCCTCATA
* *
2502348 GTATCGATACTC-CCCTCTTG
1 GTATCGATAC-CACCCTCATA
2502368 GTATCGATACCAC
1 GTATCGATACCAC
2502381 TTAAAGCGGT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
19 1 0.04
20 25 0.93
21 1 0.04
ACGTcount: A:0.25, C:0.34, G:0.11, T:0.30
Consensus pattern (20 bp):
GTATCGATACCACCCTCATA
Found at i:2503661 original size:59 final size:58
Alignment explanation
Indices: 2503569--2503749 Score: 263
Period size: 59 Copynumber: 3.1 Consensus size: 58
2503559 TTCTAACCTG
* * *
2503569 ATATGACACATTAGGTCATGCCCACCATCTGCACTAGTTATACTTTAGTGCAGATCTGA
1 ATATGACACATAAGGTCGTGCCCACCATATGCACTAGTTATACTTTAGTGCA-ATCTGA
* * *
2503628 ATATGACATATAAGGTCGTGCCCACCATATGCACTTGTTATACTTTAGTGCAATCCCGA
1 ATATGACACATAAGGTCGTGCCCACCATATGCACTAGTTATACTTTAGTGCAAT-CTGA
* *
2503687 ATATGACACATAAGGTTGTGCCCACCATATGAACTAGTTATACTTTAGTGCAATCTTGA
1 ATATGACACATAAGGTCGTGCCCACCATATGCACTAGTTATACTTTAGTGCAATC-TGA
2503746 ATAT
1 ATAT
2503750 ACAACCTACT
Statistics
Matches: 109, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
58 3 0.03
59 106 0.97
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (58 bp):
ATATGACACATAAGGTCGTGCCCACCATATGCACTAGTTATACTTTAGTGCAATCTGA
Found at i:2504184 original size:17 final size:18
Alignment explanation
Indices: 2504159--2504192 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
2504149 TCCTTTGCTT
*
2504159 CAAATTTGGTTA-AATTA
1 CAAAATTGGTTATAATTA
2504176 CAAAATTGGTTATAATT
1 CAAAATTGGTTATAATT
2504193 TCATATCCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.41, C:0.06, G:0.12, T:0.41
Consensus pattern (18 bp):
CAAAATTGGTTATAATTA
Found at i:2509885 original size:59 final size:59
Alignment explanation
Indices: 2509792--2510031 Score: 295
Period size: 59 Copynumber: 4.1 Consensus size: 59
2509782 CTAACCCGAG
* * * * ** *
2509792 TATGAAACATAAGG-TCGTGCCCACCATATGCACTAGTTATACCTTAATGCAATATTTAA
1 TATGACACATAAGGCT-ATGCCCACCATATGCACTAGTTATACTTTAGTGCAATCCTGAA
* * *
2509851 TATGACACATAAGGCCT-TGCCCATCATATACACTAGTTATACTTTAGTGCAATCCCGAA
1 TATGACACATAAGG-CTATGCCCACCATATGCACTAGTTATACTTTAGTGCAATCCTGAA
* * * * *
2509910 TATGACACATAAGGTTGTGTCCACCATATGTACTAGTTATACTTTAGTACAATCCTGAA
1 TATGACACATAAGGCTATGCCCACCATATGCACTAGTTATACTTTAGTGCAATCCTGAA
* *
2509969 TATGACACATAAGGTTATGCCCACCATATGCACTAGTTATACTTTAGTGCAATCCCGAA
1 TATGACACATAAGGCTATGCCCACCATATGCACTAGTTATACTTTAGTGCAATCCTGAA
2510028 TATG
1 TATG
2510032 TGGCATGCTA
Statistics
Matches: 157, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
58 1 0.01
59 155 0.99
61 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.31
Consensus pattern (59 bp):
TATGACACATAAGGCTATGCCCACCATATGCACTAGTTATACTTTAGTGCAATCCTGAA
Found at i:2509990 original size:118 final size:118
Alignment explanation
Indices: 2509776--2510031 Score: 354
Period size: 118 Copynumber: 2.2 Consensus size: 118
2509766 GCTAAGTAAC
*
2509776 TTAGTGCTAA-CCCGAGTATGAAACATAAGGTCGTGCCCACCATATGCACTAGTTATACCTTAAT
1 TTAGTGC-AATCCCGAATATGAAACATAAGGTCGTGCCCACCATATGCACTAGTTATACCTTAAT
* * * *
2509840 GCAATATTTAATATGACACATAAGGCCTTGCCCATCATATACACTAGTTATACT
65 ACAATACTGAATATGACACATAAGGCCTTGCCCACCATATACACTAGTTATACT
* * * * * *
2509894 TTAGTGCAATCCCGAATATGACACATAAGGTTGTGTCCACCATATGTACTAGTTATACTTTAGTA
1 TTAGTGCAATCCCGAATATGAAACATAAGGTCGTGCCCACCATATGCACTAGTTATACCTTAATA
* * *
2509959 CAATCCTGAATATGACACATAAGG-TTATGCCCACCATATGCACTAGTTATACT
66 CAATACTGAATATGACACATAAGGCCT-TGCCCACCATATACACTAGTTATACT
2510012 TTAGTGCAATCCCGAATATG
1 TTAGTGCAATCCCGAATATG
2510032 TGGCATGCTA
Statistics
Matches: 122, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
117 3 0.02
118 119 0.98
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.30
Consensus pattern (118 bp):
TTAGTGCAATCCCGAATATGAAACATAAGGTCGTGCCCACCATATGCACTAGTTATACCTTAATA
CAATACTGAATATGACACATAAGGCCTTGCCCACCATATACACTAGTTATACT
Found at i:2519591 original size:54 final size:54
Alignment explanation
Indices: 2519516--2519819 Score: 187
Period size: 54 Copynumber: 5.7 Consensus size: 54
2519506 TATTTATTGC
** * * *
2519516 AACTCATTAT-AAGTTTTGTGGGGTGTACACGTAGTG-CTAATATGATT-ATTCATA
1 AACTCATTATGAA-TTCAGTGGGGTGCACACTTAGTGTC-AATACG-TTCATTCATA
* * *
2519570 AACTCATTATGAATTCAGTGGGTTGCACACTTAGTGTCGATACGTTCGTTCATA
1 AACTCATTATGAATTCAGTGGGGTGCACACTTAGTGTCAATACGTTCATTCATA
* * * ** * *
2519624 AACTTATTATGAATTCCGT-GGGTGGACACTTAGTGTTGATACAG-TCTTTCGTA
1 AACTCATTATGAATTCAGTGGGGTGCACACTTAGTGTCAATAC-GTTCATTCATA
* * * * * *
2519677 AACTTATTTTAAATT-ATGTGGGTTGCACACTTAGTGCTC-ATATGGTCATTCATA
1 AACTCATTATGAATTCA-GTGGGGTGCACACTTAGTG-TCAATACGTTCATTCATA
* * * * * * *
2519731 AAGTTATTATGAATT-ACGTGGGCTACACACTTTGTGTCGATACAG-TCGTTCATA
1 AACTCATTATGAATTCA-GTGGGGTGCACACTTAGTGTCAATAC-GTTCATTCATA
* * *
2519785 AACTTA-TATGAATTCCGTGGGTTGCACACTTAGTG
1 AACTCATTATGAATTCAGTGGGGTGCACACTTAGTG
2519820 GCGATCATAA
Statistics
Matches: 201, Mismatches: 38, Indels: 23
0.77 0.15 0.09
Matches are distributed among these distances:
53 71 0.35
54 125 0.62
55 5 0.02
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.37
Consensus pattern (54 bp):
AACTCATTATGAATTCAGTGGGGTGCACACTTAGTGTCAATACGTTCATTCATA
Found at i:2519708 original size:107 final size:107
Alignment explanation
Indices: 2519564--2519824 Score: 303
Period size: 107 Copynumber: 2.4 Consensus size: 107
2519554 AATATGATTA
* * * *
2519564 TTCATAAACTCATTATGAATT-CAGTGGGTTGCACACTTAGTGTCGATACGTTCGTTCATAAACT
1 TTCATAAACTTA-TATAAATTAC-GTGGGTTGCACACTTAGTGTCGATACGGTCATTCATAAACT
* ** * *
2519628 TATTATGAATTCCGTGGG-TGGACACTTAGTGTTGATACAGTCT
64 TATTATGAATTACGTGGGCTACACACTTAGTGTCGATACAGTCG
* * * * *
2519671 TTCGTAAACTTATTTTAAATTATGTGGGTTGCACACTTAGTGCTC-ATATGGTCATTCATAAAGT
1 TTCATAAACTTA-TATAAATTACGTGGGTTGCACACTTAGTG-TCGATACGGTCATTCATAAACT
*
2519735 TATTATGAATTACGTGGGCTACACACTTTGTGTCGATACAGTCG
64 TATTATGAATTACGTGGGCTACACACTTAGTGTCGATACAGTCG
* * *
2519779 TTCATAAACTTATATGAATTCCGTGGGTTGCACACTTAGTGGCGAT
1 TTCATAAACTTATATAAATTACGTGGGTTGCACACTTAGTGTCGAT
2519825 CATAAAAATG
Statistics
Matches: 129, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
106 1 0.01
107 95 0.74
108 33 0.26
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.37
Consensus pattern (107 bp):
TTCATAAACTTATATAAATTACGTGGGTTGCACACTTAGTGTCGATACGGTCATTCATAAACTTA
TTATGAATTACGTGGGCTACACACTTAGTGTCGATACAGTCG
Found at i:2520559 original size:21 final size:21
Alignment explanation
Indices: 2520533--2520575 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
2520523 ACACCAATTT
2520533 TCCAAACATGTTTTTAATCAC
1 TCCAAACATGTTTTTAATCAC
2520554 TCCAAACATGTTTTTAATCAC
1 TCCAAACATGTTTTTAATCAC
2520575 T
1 T
2520576 TATAAGGCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.40
Consensus pattern (21 bp):
TCCAAACATGTTTTTAATCAC
Found at i:2521730 original size:84 final size:84
Alignment explanation
Indices: 2521636--2521801 Score: 332
Period size: 84 Copynumber: 2.0 Consensus size: 84
2521626 TTATCGTGGA
2521636 TAATTTTCACTTTATCTTCTATTTCTTTAATTAAATTTGGGCCAACAAGATCTCGATCTTTTAGT
1 TAATTTTCACTTTATCTTCTATTTCTTTAATTAAATTTGGGCCAACAAGATCTCGATCTTTTAGT
2521701 TCAAACCTGTTTAATGGTG
66 TCAAACCTGTTTAATGGTG
2521720 TAATTTTCACTTTATCTTCTATTTCTTTAATTAAATTTGGGCCAACAAGATCTCGATCTTTTAGT
1 TAATTTTCACTTTATCTTCTATTTCTTTAATTAAATTTGGGCCAACAAGATCTCGATCTTTTAGT
2521785 TCAAACCTGTTTAATGG
66 TCAAACCTGTTTAATGG
2521802 CGTTCGACAC
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 82 1.00
ACGTcount: A:0.27, C:0.17, G:0.11, T:0.45
Consensus pattern (84 bp):
TAATTTTCACTTTATCTTCTATTTCTTTAATTAAATTTGGGCCAACAAGATCTCGATCTTTTAGT
TCAAACCTGTTTAATGGTG
Found at i:2526541 original size:54 final size:54
Alignment explanation
Indices: 2526491--2526886 Score: 468
Period size: 54 Copynumber: 7.3 Consensus size: 54
2526481 CCGTGGGGTA
* * *
2526491 CACACGTAGTATCGATACGATCATTCATAAACTCATTATGAATTCAGTGGGTTG
1 CACACTTAGTGTCGATACGATCATTCATAAACTTATTATGAATTCAGTGGGTTG
* * *
2526545 CACACTTAGTGTCGATACGGTCGTTCATAAGA-ATATTATGAATTCTA-TGGGTTG
1 CACACTTAGTGTCGATACGATCATTCATAA-ACTTATTATGAATTC-AGTGGGTTG
* ** * *
2526599 CAAACTTAGTACCGATAGGGTCATTCATAAACTTATTATGAATTTCA-TGGGTTG
1 CACACTTAGTGTCGATACGATCATTCATAAACTTATTATGAA-TTCAGTGGGTTG
* * *
2526653 CACACTTAGTGTCGATACGGTCGTTCATAAATTTATTATGAATTCTA-TGGGTTG
1 CACACTTAGTGTCGATACGATCATTCATAAACTTATTATGAATTC-AGTGGGTTG
* * *
2526707 TACAC-TAGGTGCCAATACGAT-AGTTCATAAACTTATTATGAATT-ACGTGGGTTG
1 CACACTTA-GTGTCGATACGATCA-TTCATAAACTTATTATGAATTCA-GTGGGTTG
**
2526761 CACACTTAGTGTCGATACTG-TTGTTCATAAACTTATTATGAATTTC-GTGGGTTG
1 CACACTTAGTGTCGATAC-GATCATTCATAAACTTATTATGAA-TTCAGTGGGTTG
*
2526815 CACACTTAGTGTCGATACGATCATTCATAAACTTATTATGAATTCTGTGGGTTG
1 CACACTTAGTGTCGATACGATCATTCATAAACTTATTATGAATTCAGTGGGTTG
2526869 CACACTTAGTGTCGATAC
1 CACACTTAGTGTCGATAC
2526887 ATAAAAATGC
Statistics
Matches: 296, Mismatches: 30, Indels: 32
0.83 0.08 0.09
Matches are distributed among these distances:
52 1 0.00
53 10 0.03
54 275 0.93
55 10 0.03
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.36
Consensus pattern (54 bp):
CACACTTAGTGTCGATACGATCATTCATAAACTTATTATGAATTCAGTGGGTTG
Found at i:2526660 original size:108 final size:107
Alignment explanation
Indices: 2526491--2526886 Score: 530
Period size: 108 Copynumber: 3.7 Consensus size: 107
2526481 CCGTGGGGTA
* * *
2526491 CACACGTAGTATCGATACGATCATTCATAAACTCATTATGAATTCAGTGGGTTGCACACTTAGTG
1 CACACTTAGTACCGATACGATCATTCATAAACTTATTATGAATTCA-TGGGTTGCACACTTAGTG
*
2526556 TCGATACGGTCGTTCATAAGA-ATATTATGAATTCTATGGGTTG
65 TCGATACGGTCGTTCATAA-ACTTATTATGAATTCTATGGGTTG
* * *
2526599 CAAACTTAGTACCGATAGGGTCATTCATAAACTTATTATGAATTTCATGGGTTGCACACTTAGTG
1 CACACTTAGTACCGATACGATCATTCATAAACTTATTATGAA-TTCATGGGTTGCACACTTAGTG
*
2526664 TCGATACGGTCGTTCATAAATTTATTATGAATTCTATGGGTTG
65 TCGATACGGTCGTTCATAAACTTATTATGAATTCTATGGGTTG
* * * *
2526707 TACAC-TAGGTGCCAATACGAT-AGTTCATAAACTTATTATGAATTACGTGGGTTGCACACTTAG
1 CACACTTA-GTACCGATACGATCA-TTCATAAACTTATTATGAATT-CATGGGTTGCACACTTAG
* * *
2526770 TGTCGATACTGTTGTTCATAAACTTATTATGAATT-TCGTGGGTTG
63 TGTCGATACGGTCGTTCATAAACTTATTATGAATTCT-ATGGGTTG
** *
2526815 CACACTTAGTGTCGATACGATCATTCATAAACTTATTATGAATTCTGTGGGTTGCACACTTAGTG
1 CACACTTAGTACCGATACGATCATTCATAAACTTATTATGAATTC-ATGGGTTGCACACTTAGTG
2526880 TCGATAC
65 TCGATAC
2526887 ATAAAAATGC
Statistics
Matches: 258, Mismatches: 21, Indels: 18
0.87 0.07 0.06
Matches are distributed among these distances:
107 8 0.03
108 243 0.94
109 7 0.03
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.36
Consensus pattern (107 bp):
CACACTTAGTACCGATACGATCATTCATAAACTTATTATGAATTCATGGGTTGCACACTTAGTGT
CGATACGGTCGTTCATAAACTTATTATGAATTCTATGGGTTG
Found at i:2535043 original size:90 final size:90
Alignment explanation
Indices: 2534890--2535067 Score: 302
Period size: 90 Copynumber: 2.0 Consensus size: 90
2534880 CCTAACACAC
* * *
2534890 CCTTTTATAGCCAAGTTACCCTAGTCATATTAGGGTTTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATCAGGGATTTTATTATTTCAAATTAATTAAATCTAT
* *
2534955 ATTTAATTAATTGGAATTTAATAAT
66 ATTTAATTAATTGAAATTAAATAAT
*
2534980 CCTTTTATATCCAAGTTACCCTAATCATATCAGGGATTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATCAGGGATTTTATTATTTCAAATTAATTAAATCTAT
2535045 ATTTAATTAATTGAAATTAAATA
66 ATTTAATTAATTGAAATTAAATA
2535068 TTCGGGATTA
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
90 82 1.00
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.44
Consensus pattern (90 bp):
CCTTTTATAGCCAAGTTACCCTAATCATATCAGGGATTTTATTATTTCAAATTAATTAAATCTAT
ATTTAATTAATTGAAATTAAATAAT
Found at i:2543440 original size:22 final size:22
Alignment explanation
Indices: 2543414--2543472 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 22
2543404 ACTTTTCTTT
*
2543414 CTTTCTTTTTCTTTTTCAAGTG
1 CTTTCATTTTCTTTTTCAAGTG
* **
2543436 CTTTCAATTTCTTCTTTTGAGTG
1 CTTTCATTTTCTT-TTTCAAGTG
*
2543459 CTTTGATTTTCTTT
1 CTTTCATTTTCTTT
2543473 GCTGATTTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
22 12 0.40
23 18 0.60
ACGTcount: A:0.10, C:0.17, G:0.10, T:0.63
Consensus pattern (22 bp):
CTTTCATTTTCTTTTTCAAGTG
Found at i:2547686 original size:90 final size:89
Alignment explanation
Indices: 2547533--2547707 Score: 287
Period size: 90 Copynumber: 2.0 Consensus size: 89
2547523 CCTAACACAC
* * * *
2547533 CCTTTTATACCCAAGTTACCCTAGTCATATTAGGGTTTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATACCCAAGTTACCCTAATCATATCAGGGATTTTATTATTTCAAAATAATTAAATCTAT
*
2547598 ATTTAATTAATTTGAATTTAATAAT
66 ATTTAATTAA-TTGAAATTAATAAT
*
2547623 CCTTTTATATCCAAGTTACCCTAATCATATCAGGGATTTTATTATTTCAAAATAATTAAATCTAT
1 CCTTTTATACCCAAGTTACCCTAATCATATCAGGGATTTTATTATTTCAAAATAATTAAATCTAT
2547688 ATTTAATTAATTGAAATTAA
66 ATTTAATTAATTGAAATTAA
2547708 ATATTCAGAT
Statistics
Matches: 79, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
89 9 0.11
90 70 0.89
ACGTcount: A:0.37, C:0.13, G:0.06, T:0.45
Consensus pattern (89 bp):
CCTTTTATACCCAAGTTACCCTAATCATATCAGGGATTTTATTATTTCAAAATAATTAAATCTAT
ATTTAATTAATTGAAATTAATAAT
Found at i:2552717 original size:45 final size:45
Alignment explanation
Indices: 2552611--2552847 Score: 276
Period size: 45 Copynumber: 5.2 Consensus size: 45
2552601 ATAATGCACC
* * ** *
2552611 ATTATGCATTTTCATTTATGGAAAGCATTCATGCCTTTTTATACACT
1 ATTATACA-TTTCATTTATGGCATCCTTTCATGCC-TTTTATACACT
* *
2552658 ATTATATATTTCATTTATGGCATCCTTTCATGCCTTTTATACTCT
1 ATTATACATTTCATTTATGGCATCCTTTCATGCCTTTTATACACT
* * * * * *
2552703 ATTAAACATCTCATTTATGACATCCTTTCATACCTTCTATACACC
1 ATTATACATTTCATTTATGGCATCCTTTCATGCCTTTTATACACT
* * * *
2552748 AATATACATTTCATTTATGGCATCATTTCTTGCCTTTTATACTCT
1 ATTATACATTTCATTTATGGCATCCTTTCATGCCTTTTATACACT
* * *
2552793 ATTAGACATTTCATTTATGGAATCCTTTCATGCCTTTTATACACC
1 ATTATACATTTCATTTATGGCATCCTTTCATGCCTTTTATACACT
2552838 ATTATACATT
1 ATTATACATT
2552848 GTTATACATC
Statistics
Matches: 157, Mismatches: 33, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
45 129 0.82
46 22 0.14
47 6 0.04
ACGTcount: A:0.27, C:0.21, G:0.07, T:0.45
Consensus pattern (45 bp):
ATTATACATTTCATTTATGGCATCCTTTCATGCCTTTTATACACT
Found at i:2553481 original size:34 final size:34
Alignment explanation
Indices: 2553427--2553717 Score: 240
Period size: 34 Copynumber: 7.9 Consensus size: 34
2553417 TTATGGAATC
* *
2553427 CTTTCATGCCAATAATGCACCCATATGCATTATT
1 CTTTTATGCCGATAATGCACCCATATGCATTATT
*
2553461 CTTTTATGTCGATAATGCACCCATATGCATTTCAGTTGT
1 CTTTTATGCCGATAATGCACCCATATGCA-TT-A--T-T
*** *
2553500 GGCTTCCTCTCATGATAATAATACACCCATATGCATTATT
1 --CTT--T-T-ATGCCGATAATGCACCCATATGCATTATT
* *
2553540 CTTTTATACCGATAATGCGCCCATATGCATTATT
1 CTTTTATGCCGATAATGCACCCATATGCATTATT
* *
2553574 CTTTTAGGCCGATAATGCACCCATAGGCATTATT
1 CTTTTATGCCGATAATGCACCCATATGCATTATT
* *
2553608 CTTTTAGGCTGATAATGCACCCATATGCATTTCAGCTATGGCAT
1 CTTTTATGCCGATAATGCACCCATATGCA--T----TAT----T
*
2553652 CTTTTCATGCCTATAATGCACCCATATGCATTATT
1 CTTTT-ATGCCGATAATGCACCCATATGCATTATT
* *
2553687 CTTTTAGGCTGATAATGCACCCATATGCATT
1 CTTTTATGCCGATAATGCACCCATATGCATT
2553718 TCAGCTATGG
Statistics
Matches: 210, Mismatches: 25, Indels: 44
0.75 0.09 0.16
Matches are distributed among these distances:
34 129 0.61
35 9 0.04
36 3 0.01
38 4 0.02
39 4 0.02
40 4 0.02
41 4 0.02
43 3 0.01
44 9 0.04
45 41 0.20
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.36
Consensus pattern (34 bp):
CTTTTATGCCGATAATGCACCCATATGCATTATT
Found at i:2553527 original size:79 final size:79
Alignment explanation
Indices: 2553418--2553740 Score: 375
Period size: 79 Copynumber: 4.2 Consensus size: 79
2553408 GCATTCTATT
* * *
2553418 TATGGAATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATG-TCGATAATGCACC
1 TATGGCATCCTTTCATGCTAATAATGCACCCATATGCATTATTCTTTTAGGCT-GATAATGCACC
*
2553482 CATATGCATTTCAGT
65 CATATGCATTTCAGC
* * * * * ** * *
2553497 TGTGGCTTCCTCTCATGATAATAATACACCCATATGCATTATTCTTTTATACCGATAATGCGCCC
1 TATGGCATCCTTTCATGCTAATAATGCACCCATATGCATTATTCTTTTAGGCTGATAATGCACCC
2553562 ATATGCA-TT-A--
66 ATATGCATTTCAGC
* ** *
2553572 T-T--C-T--TTT-AGGCCGATAATGCACCCATAGGCATTATTCTTTTAGGCTGATAATGCACCC
1 TATGGCATCCTTTCATGCTAATAATGCACCCATATGCATTATTCTTTTAGGCTGATAATGCACCC
2553630 ATATGCATTTCAGC
66 ATATGCATTTCAGC
*
2553644 TATGGCATCTTTTCATGCCT-ATAATGCACCCATATGCATTATTCTTTTAGGCTGATAATGCACC
1 TATGGCATCCTTTCATG-CTAATAATGCACCCATATGCATTATTCTTTTAGGCTGATAATGCACC
2553708 CATATGCATTTCAGC
65 CATATGCATTTCAGC
2553723 TATGGCATCCTTTCATGC
1 TATGGCATCCTTTCATGC
2553741 CATTTTAATT
Statistics
Matches: 206, Mismatches: 25, Indels: 27
0.80 0.10 0.10
Matches are distributed among these distances:
68 48 0.23
69 4 0.02
70 1 0.00
71 1 0.00
72 2 0.01
73 1 0.00
74 1 0.00
75 2 0.01
76 1 0.00
77 1 0.00
78 6 0.03
79 137 0.67
80 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (79 bp):
TATGGCATCCTTTCATGCTAATAATGCACCCATATGCATTATTCTTTTAGGCTGATAATGCACCC
ATATGCATTTCAGC
Found at i:2553674 original size:45 final size:46
Alignment explanation
Indices: 2553616--2553741 Score: 143
Period size: 34 Copynumber: 3.0 Consensus size: 46
2553606 TTCTTTTAGG
2553616 CTGATAATGCACCCATATGCATTTCAGCTATGGCATCTTTTCATGC
1 CTGATAATGCACCCATATGCATTTCAGCTATGGCATCTTTTCATGC
*
2553662 CT-ATAATGCACCCATATGCA--T----TAT----TCTTTT-A-GG
1 CTGATAATGCACCCATATGCATTTCAGCTATGGCATCTTTTCATGC
*
2553695 CTGATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGC
1 CTGATAATGCACCCATATGCATTTCAGCTATGGCATCTTTTCATGC
2553741 C
1 C
2553742 ATTTTAATTA
Statistics
Matches: 64, Mismatches: 3, Indels: 26
0.69 0.03 0.28
Matches are distributed among these distances:
33 3 0.05
34 19 0.30
35 6 0.09
36 1 0.02
39 3 0.05
40 3 0.05
43 1 0.02
44 5 0.08
45 19 0.30
46 4 0.06
ACGTcount: A:0.25, C:0.26, G:0.14, T:0.35
Consensus pattern (46 bp):
CTGATAATGCACCCATATGCATTTCAGCTATGGCATCTTTTCATGC
Found at i:2553710 original size:147 final size:147
Alignment explanation
Indices: 2553438--2553717 Score: 411
Period size: 147 Copynumber: 1.9 Consensus size: 147
2553428 TTTCATGCCA
* * * *
2553438 ATAATGCACCCATATGCATTATTCTTTTATGTCGATAATGCACCCATATGCATTTCAGTTGTGGC
1 ATAATGCACCCATAGGCATTATTCTTTTAGGTCGATAATGCACCCATATGCATTTCAGCTATGGC
* * *
2553503 TTCCTCTCATGATAATAATACACCCATATGCATTATTCTTTTATACCGATAATGCGCCCATATGC
66 ATCCTCTCATGATAATAATACACCCATATGCATTATTCTTTTAGACCGATAATGCACCCATATGC
2553568 ATTATTCTTTTAGGCCG
131 ATTATTCTTTTAGGCCG
2553585 ATAATGCACCCATAGGCATTATTCTTTTAGG-CTGATAATGCACCCATATGCATTTCAGCTATGG
1 ATAATGCACCCATAGGCATTATTCTTTTAGGTC-GATAATGCACCCATATGCATTTCAGCTATGG
* * * * * *
2553649 CATCTTTTCATGCCT-ATAATGCACCCATATGCATTATTCTTTTAGGCTGATAATGCACCCATAT
65 CATCCTCTCATG-ATAATAATACACCCATATGCATTATTCTTTTAGACCGATAATGCACCCATAT
2553713 GCATT
129 GCATT
2553718 TCAGCTATGG
Statistics
Matches: 118, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
146 1 0.01
147 116 0.98
148 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (147 bp):
ATAATGCACCCATAGGCATTATTCTTTTAGGTCGATAATGCACCCATATGCATTTCAGCTATGGC
ATCCTCTCATGATAATAATACACCCATATGCATTATTCTTTTAGACCGATAATGCACCCATATGC
ATTATTCTTTTAGGCCG
Found at i:2558368 original size:45 final size:45
Alignment explanation
Indices: 2558304--2558458 Score: 186
Period size: 45 Copynumber: 3.4 Consensus size: 45
2558294 TTCATGCCTT
*
2558304 TTTATACACTATTATACATTTCATTTATGGAATCCTTTCATACCA
1 TTTATACACTATTATACATTTCATTTATGGAATCATTTCATACCA
* * * * *
2558349 TTTATACTCTATTAAACATTTCATTTATGGCATCATTTCATGCCT
1 TTTATACACTATTATACATTTCATTTATGGAATCATTTCATACCA
* * * **
2558394 TTTATACACCATTATACATTTCATTTATGGCATCATTTTAGGCC-
1 TTTATACACTATTATACATTTCATTTATGGAATCATTTCATACCA
*
2558438 TTGTATACACCATTATACATT
1 TT-TATACACTATTATACATT
2558459 GTTAGGCCTT
Statistics
Matches: 98, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
44 2 0.02
45 96 0.98
ACGTcount: A:0.29, C:0.20, G:0.06, T:0.45
Consensus pattern (45 bp):
TTTATACACTATTATACATTTCATTTATGGAATCATTTCATACCA
Found at i:2558458 original size:90 final size:91
Alignment explanation
Indices: 2558263--2558458 Score: 229
Period size: 90 Copynumber: 2.2 Consensus size: 91
2558253 GCTTATAATG
* *
2558263 CACCATTATGCATTTTCATTTATGACAATTGTTCATGCCTTTTTATACACTATTATACATTTCAT
1 CACCATTATACA-TTTCATTTATGACAATTGTTCATGCCTTTTTATACACCATTATACATTTCAT
* *
2558328 TTATGGAATCCTTTCATACCATTTATA
65 TTATGGAATCATTTCAGACCATTTATA
* * * *
2558355 CTCTATTAAACATTTCATTTATGGC-ATCAT-TTCATGCC-TTTTATACACCATTATACATTTCA
1 CACCATTATACATTTCATTTATGACAAT--TGTTCATGCCTTTTTATACACCATTATACATTTCA
* * *
2558417 TTTATGGCATCATTTTAGGCC-TTGTATA
64 TTTATGGAATCATTTCAGACCATT-TATA
2558445 CACCATTATACATT
1 CACCATTATACATT
2558459 GTTAGGCCTT
Statistics
Matches: 87, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
89 2 0.02
90 56 0.64
91 20 0.23
92 9 0.10
ACGTcount: A:0.28, C:0.20, G:0.07, T:0.44
Consensus pattern (91 bp):
CACCATTATACATTTCATTTATGACAATTGTTCATGCCTTTTTATACACCATTATACATTTCATT
TATGGAATCATTTCAGACCATTTATA
Found at i:2559216 original size:45 final size:45
Alignment explanation
Indices: 2559152--2559270 Score: 134
Period size: 34 Copynumber: 2.9 Consensus size: 45
2559142 TTTTATGTTG
*
2559152 ATAATGCACCCATATGCATTTTAGCTATGGCATCCTTTCATGCCA
1 ATAATGCACCCATATGCATTTTAGCTATGGCATCCTTTCAGGCCA
*
2559197 ATAATGCACCCATATGCA--TTA--T-T--C-T--TTT-AGGCCG
1 ATAATGCACCCATATGCATTTTAGCTATGGCATCCTTTCAGGCCA
*
2559231 ATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCA
1 ATAATGCACCCATATGCATTTTAGCTATGGCATCCTTTCA
2559271 ATCCAATTTA
Statistics
Matches: 60, Mismatches: 3, Indels: 22
0.71 0.04 0.26
Matches are distributed among these distances:
34 22 0.37
35 3 0.05
36 2 0.03
37 1 0.02
38 2 0.03
39 1 0.02
40 1 0.02
41 2 0.03
42 1 0.02
43 3 0.05
44 3 0.05
45 19 0.32
ACGTcount: A:0.27, C:0.26, G:0.13, T:0.34
Consensus pattern (45 bp):
ATAATGCACCCATATGCATTTTAGCTATGGCATCCTTTCAGGCCA
Found at i:2559277 original size:79 final size:79
Alignment explanation
Indices: 2559020--2559270 Score: 414
Period size: 79 Copynumber: 3.2 Consensus size: 79
2559010 GCATTTTATT
*
2559020 TATGGCATCCTTTAATGCCAATAATGCA-CCATATGCATTATTCTTTTATGTCGATAATGCACCC
1 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGTCGATAATGCACCC
*
2559084 TTATGCATTTCAGC
66 ATATGCATTTCAGC
* * * *
2559098 TATGACATCCTTTCATGCCAATAATTCACCCATATGAATTATTCTTTTATGTTGATAATGCACCC
1 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGTCGATAATGCACCC
*
2559163 ATATGCATTTTAGC
66 ATATGCATTTCAGC
* *
2559177 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTAGGCCGATAATGCACCC
1 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGTCGATAATGCACCC
2559242 ATATGCATTTCAGC
66 ATATGCATTTCAGC
2559256 TATGGCATCCTTTCA
1 TATGGCATCCTTTCA
2559271 ATCCAATTTA
Statistics
Matches: 158, Mismatches: 14, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
78 25 0.16
79 133 0.84
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.37
Consensus pattern (79 bp):
TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGTCGATAATGCACCC
ATATGCATTTCAGC
Found at i:2559854 original size:94 final size:95
Alignment explanation
Indices: 2559708--2559883 Score: 273
Period size: 94 Copynumber: 1.9 Consensus size: 95
2559698 CTACGGTATT
* * *
2559708 GATACCCCCTTCCAGTATCGATACCAATTTTAGCTTCGATGTTGCCTAGTATCGATACCCTTACC
1 GATACCCCCTTCCAGTATCAATACCAATTTTAGATTCAATGTTGCCTAGTATCGATACCCTTACC
*
2559773 ATGGTATCGATACTACCATATTATAGTACC
66 ACGGTATCGATACTACCATATTATAGTACC
* * * *
2559803 GATA-CCCCTTTCGGTATCAATACCAATTTTAGATTCAATGTTGTCTGGTATCGATACCCTTACC
1 GATACCCCCTTCCAGTATCAATACCAATTTTAGATTCAATGTTGCCTAGTATCGATACCCTTACC
2559867 ACGGTATCGATACTACC
66 ACGGTATCGATACTACC
2559884 TCGTCGGTAT
Statistics
Matches: 73, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
94 69 0.95
95 4 0.05
ACGTcount: A:0.26, C:0.27, G:0.14, T:0.33
Consensus pattern (95 bp):
GATACCCCCTTCCAGTATCAATACCAATTTTAGATTCAATGTTGCCTAGTATCGATACCCTTACC
ACGGTATCGATACTACCATATTATAGTACC
Done.