Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold228
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: 4123243
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33
File 5 of 27
Found at i:643856 original size:13 final size:13
Alignment explanation
Indices: 643838--643863 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
643828 TACACAAAGT
643838 ATGTATCGATACA
1 ATGTATCGATACA
643851 ATGTATCGATACA
1 ATGTATCGATACA
643864 CAAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:643882 original size:34 final size:32
Alignment explanation
Indices: 643820--643884 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
643810 TAGCCAAACT
**
643820 TGTATCGATACACAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAATGTATCGATACAA
643852 TGTATCGATACACAAAAAAATTGTATCGATACA
1 TGTATCGATACAC-AAAAAA-TGTATCGATACA
643885 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 13 0.45
33 4 0.14
34 12 0.41
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACAAAAAATGTATCGATACAA
Found at i:643949 original size:20 final size:21
Alignment explanation
Indices: 643919--643957 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
643909 CTGTATTTTC
643919 AAATATGTATCGATACATTAA
1 AAATATGTATCGATACATTAA
643940 AAAT-TGTATCGATACATT
1 AAATATGTATCGATACATT
643958 CACACGGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.36
Consensus pattern (21 bp):
AAATATGTATCGATACATTAA
Found at i:645582 original size:22 final size:22
Alignment explanation
Indices: 645557--645608 Score: 52
Period size: 26 Copynumber: 2.2 Consensus size: 22
645547 GGGAAAATAA
645557 GACACTGTT-GGAAAGATATTTT
1 GACACT-TTGGGAAAGATATTTT
645579 GACATACTTTAGGGGAAAGATATTTT
1 GAC--ACTTT--GGGAAAGATATTTT
645605 GACA
1 GACA
645609 TACTTTAGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
22 3 0.12
23 2 0.08
24 4 0.16
26 16 0.64
ACGTcount: A:0.35, C:0.10, G:0.23, T:0.33
Consensus pattern (22 bp):
GACACTTTGGGAAAGATATTTT
Found at i:645602 original size:26 final size:26
Alignment explanation
Indices: 645566--645622 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
645556 AGACACTGTT
645566 GGAAAGATATTTTGACATACTTTAGG
1 GGAAAGATATTTTGACATACTTTAGG
645592 GGAAAGATATTTTGACATACTTTAGG
1 GGAAAGATATTTTGACATACTTTAGG
645618 GGAAA
1 GGAAA
645623 AATACTAAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.37, C:0.07, G:0.25, T:0.32
Consensus pattern (26 bp):
GGAAAGATATTTTGACATACTTTAGG
Found at i:647099 original size:20 final size:20
Alignment explanation
Indices: 647074--647172 Score: 81
Period size: 20 Copynumber: 4.8 Consensus size: 20
647064 ATTTGCCTAC
647074 ATGTATCGATACATTGAATA
1 ATGTATCGATACATTGAATA
**
647094 ATGTATCGATACATCTGGGTAA
1 ATGTATCGATACAT-TGAAT-A
* ** ** * *
647116 ATTTCCCAGATGTATCGATACA
1 ATGTATC-GATACATTGA-ATA
647138 ATGTATCGATACATTGAATA
1 ATGTATCGATACATTGAATA
647158 ATGTATCGATACATT
1 ATGTATCGATACATT
647173 TCCTTGGCAG
Statistics
Matches: 57, Mismatches: 18, Indels: 8
0.69 0.22 0.10
Matches are distributed among these distances:
20 31 0.54
21 10 0.18
22 11 0.19
23 5 0.09
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACATTGAATA
Found at i:647143 original size:13 final size:13
Alignment explanation
Indices: 647125--647150 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
647115 AATTTCCCAG
647125 ATGTATCGATACA
1 ATGTATCGATACA
647138 ATGTATCGATACA
1 ATGTATCGATACA
647151 TTGAATAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:647226 original size:19 final size:20
Alignment explanation
Indices: 647202--647254 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 20
647192 AGCGATACAT
647202 TGTATCGATACAATACT-TA
1 TGTATCGATACAATACTGTA
* *
647221 TGTATCGATACATTTACTGTT
1 TGTATCGATACA-ATACTGTA
647242 TGTATCGATACAA
1 TGTATCGATACAA
647255 ATTATTGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 12 0.41
20 4 0.14
21 13 0.45
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (20 bp):
TGTATCGATACAATACTGTA
Found at i:648222 original size:25 final size:26
Alignment explanation
Indices: 648188--648256 Score: 76
Period size: 25 Copynumber: 2.8 Consensus size: 26
648178 TTGTTGTTCC
648188 CTTTTGCTTTTGCACCTTTTTTTT-TG
1 CTTTTGCTTTTGCA-CTTTTTTTTATG
* *
648214 -TTTTTCTTTT-CATTTTTTTTTATG
1 CTTTTGCTTTTGCACTTTTTTTTATG
648238 CTTTTGCTTTTG-A-TTTTTT
1 CTTTTGCTTTTGCACTTTTTT
648257 CATCATTTTG
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
23 8 0.22
24 10 0.27
25 19 0.51
ACGTcount: A:0.06, C:0.13, G:0.09, T:0.72
Consensus pattern (26 bp):
CTTTTGCTTTTGCACTTTTTTTTATG
Found at i:653279 original size:98 final size:97
Alignment explanation
Indices: 653071--653428 Score: 486
Period size: 97 Copynumber: 3.7 Consensus size: 97
653061 TAATTTGGAC
* * * * * * *
653071 AAAATAAGACTTAAACTTCGATGAGTTAAAAAATGAGGTTGGAGTATCCCCTCGGACGAATGGGG
1 AAAATAAGATTTAAATTTTGATAAGTTTAAAAACGAGGTTGGAGTATCCCCTCGGAGGAATGGGG
* *
653136 TTGGAGT-TCCCCGATGATGACAATTTAATCA
66 TTGGAGTGTCCCCGATGATGACAATTTAACCG
* * * * *
653167 AAAATAAGATTTAAATTTTGATAATTTTAAAAAACGGGGTTGCAGTATTCCCTCGGAAGAATGGG
1 AAAATAAGATTTAAATTTTGATAAGTTT-AAAAACGAGGTTGGAGTATCCCCTCGGAGGAATGGG
**
653232 GTTGGAGTGTCCCCGACAATGACAATTTAACCG
65 GTTGGAGTGTCCCCGATGATGACAATTTAACCG
* *
653265 CAAATAAGATTTAAATTTTGATAAGTTTAAAAACG-GCGTTGGAGCATCCCCTCGGAGGAATGGG
1 AAAATAAGATTTAAATTTTGATAAGTTTAAAAACGAG-GTTGGAGTATCCCCTCGGAGGAATGGG
*
653329 GTTGGAGTGTCCCCGGTGATGACAATTTAACCG
65 GTTGGAGTGTCCCCGATGATGACAATTTAACCG
* * *
653362 AAAATAAGATTTAAATTTTGATAAGTTTAAAAGCGAGGTTGAAGTATCCCCTCAGAGGAATGGGG
1 AAAATAAGATTTAAATTTTGATAAGTTTAAAAACGAGGTTGGAGTATCCCCTCGGAGGAATGGGG
653427 TT
66 TT
653429 AGTGTATCAC
Statistics
Matches: 229, Mismatches: 29, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
96 23 0.10
97 159 0.69
98 47 0.21
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (97 bp):
AAAATAAGATTTAAATTTTGATAAGTTTAAAAACGAGGTTGGAGTATCCCCTCGGAGGAATGGGG
TTGGAGTGTCCCCGATGATGACAATTTAACCG
Found at i:653453 original size:97 final size:97
Alignment explanation
Indices: 653030--653444 Score: 480
Period size: 97 Copynumber: 4.3 Consensus size: 97
653020 TATCCTCTTA
* * * * * * *
653030 GAGGAATGGGGTTGGAGTAT-CCCGACAATAATAATTTGGA-C-AAAATAAGACTTAAACTTCGA
1 GAGGAATGGGGTTGGAGTATCCCCGATAATGACAATTT-AACCGAAAATAAGATTTAAATTTTGA
* * *
653092 TGAGTTAAAAAATGAGGTTGGAGTATCCCCTCG
65 TAAGTTTAAAAACGAGGTTGGAGTATCCCCTCG
* * * *
653125 GACGAATGGGGTTGGAGT-TCCCCGATGATGACAATTTAATCAAAAATAAGATTTAAATTTTGAT
1 GAGGAATGGGGTTGGAGTATCCCCGATAATGACAATTTAACCGAAAATAAGATTTAAATTTTGAT
* * * *
653189 AATTTTAAAAAACGGGGTTGCAGTATTCCCTCG
66 AAGTTT-AAAAACGAGGTTGGAGTATCCCCTCG
* * * *
653222 GAAGAATGGGGTTGGAGTGTCCCCGACAATGACAATTTAACCGCAAATAAGATTTAAATTTTGAT
1 GAGGAATGGGGTTGGAGTATCCCCGATAATGACAATTTAACCGAAAATAAGATTTAAATTTTGAT
*
653287 AAGTTTAAAAACG-GCGTTGGAGCATCCCCTCG
66 AAGTTTAAAAACGAG-GTTGGAGTATCCCCTCG
* * *
653319 GAGGAATGGGGTTGGAGTGTCCCCGGTGATGACAATTTAACCGAAAATAAGATTTAAATTTTGAT
1 GAGGAATGGGGTTGGAGTATCCCCGATAATGACAATTTAACCGAAAATAAGATTTAAATTTTGAT
* * *
653384 AAGTTTAAAAGCGAGGTTGAAGTATCCCCTCA
66 AAGTTTAAAAACGAGGTTGGAGTATCCCCTCG
* * *
653416 GAGGAATGGGGTTAGTGTATCACCGATAA
1 GAGGAATGGGGTTGGAGTATCCCCGATAA
653445 ATAAAATTTT
Statistics
Matches: 272, Mismatches: 41, Indels: 12
0.84 0.13 0.04
Matches are distributed among these distances:
94 2 0.01
95 31 0.11
96 23 0.08
97 169 0.62
98 47 0.17
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (97 bp):
GAGGAATGGGGTTGGAGTATCCCCGATAATGACAATTTAACCGAAAATAAGATTTAAATTTTGAT
AAGTTTAAAAACGAGGTTGGAGTATCCCCTCG
Found at i:655804 original size:15 final size:15
Alignment explanation
Indices: 655784--655827 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
655774 TGTCTCTTCC
655784 TTTCATTGC-ATGCCA
1 TTTCATTGCTAT-CCA
*
655799 TTTCATTACTATCCA
1 TTTCATTGCTATCCA
655814 TTTCATTGCTATCC
1 TTTCATTGCTATCC
655828 CCCTCATTGC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
15 24 0.92
16 2 0.08
ACGTcount: A:0.20, C:0.27, G:0.07, T:0.45
Consensus pattern (15 bp):
TTTCATTGCTATCCA
Found at i:655990 original size:17 final size:17
Alignment explanation
Indices: 655968--656025 Score: 57
Period size: 19 Copynumber: 3.4 Consensus size: 17
655958 ATTTTTTTGT
655968 TTTTTTAATTATTATTA
1 TTTTTTAATTATTATTA
*
655985 TTTTTTTTAACTT-TT-TGA
1 --TTTTTTAA-TTATTATTA
*
656003 TTTTTTTATTATTATTA
1 TTTTTTAATTATTATTA
656020 TTTTTT
1 TTTTTT
656026 TGAACTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
15 2 0.06
16 9 0.27
17 8 0.24
18 2 0.06
19 10 0.30
20 2 0.06
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.76
Consensus pattern (17 bp):
TTTTTTAATTATTATTA
Found at i:656008 original size:9 final size:8
Alignment explanation
Indices: 655958--656060 Score: 53
Period size: 9 Copynumber: 11.8 Consensus size: 8
655948 AACCATCATC
655958 ATTTTTTT
1 ATTTTTTT
*
655966 GTTTTTTT
1 ATTTTTTT
*
655974 AATTATTATT
1 -ATT-TTTTT
655984 ATTTTTTTT
1 A-TTTTTTT
* *
655993 AACTTTTTG
1 -ATTTTTTT
656002 ATTTTTTT
1 ATTTTTTT
*
656010 ATTATTATT
1 ATT-TTTTT
656019 ATTTTTTT
1 ATTTTTTT
* *
656027 GAACTTTTTG
1 --ATTTTTTT
656037 ATTTCTTTT
1 ATTT-TTTT
*
656046 ATTTCTTTC
1 ATTT-TTTT
656055 ATTTTT
1 ATTTTT
656061 AAATTTTTAT
Statistics
Matches: 72, Mismatches: 15, Indels: 16
0.70 0.15 0.16
Matches are distributed among these distances:
8 25 0.35
9 34 0.47
10 13 0.18
ACGTcount: A:0.17, C:0.05, G:0.04, T:0.74
Consensus pattern (8 bp):
ATTTTTTT
Found at i:656040 original size:18 final size:17
Alignment explanation
Indices: 655986--656046 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
655976 TTATTATTAT
655986 TTTTTTTAACTTTTTGA
1 TTTTTTTAACTTTTTGA
*
656003 TTTTTTT-A-TTATTATTA
1 TTTTTTTAACTT-TT-TGA
656020 TTTTTTTGAACTTTTTGA
1 TTTTTTT-AACTTTTTGA
656038 TTTCTTTTA
1 TTT-TTTTA
656047 TTTCTTTCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
15 2 0.06
16 3 0.08
17 16 0.44
18 6 0.17
19 7 0.19
20 2 0.06
ACGTcount: A:0.18, C:0.05, G:0.05, T:0.72
Consensus pattern (17 bp):
TTTTTTTAACTTTTTGA
Found at i:656060 original size:36 final size:35
Alignment explanation
Indices: 655961--656048 Score: 142
Period size: 35 Copynumber: 2.5 Consensus size: 35
655951 CATCATCATT
*
655961 TTTTTG-TTTTTTTAATTATTATTATTTTTTTTAAC
1 TTTTTGATTTTTTT-ATTATTATTATTTTTTTGAAC
655996 TTTTTGATTTTTTTATTATTATTATTTTTTTGAAC
1 TTTTTGATTTTTTTATTATTATTATTTTTTTGAAC
656031 TTTTTGATTTCTTTTATT
1 TTTTTGATTT-TTTTATT
656049 TCTTTCATTT
Statistics
Matches: 50, Mismatches: 1, Indels: 3
0.93 0.02 0.06
Matches are distributed among these distances:
35 36 0.72
36 14 0.28
ACGTcount: A:0.18, C:0.03, G:0.05, T:0.74
Consensus pattern (35 bp):
TTTTTGATTTTTTTATTATTATTATTTTTTTGAAC
Found at i:656793 original size:89 final size:89
Alignment explanation
Indices: 656541--657130 Score: 764
Period size: 89 Copynumber: 6.7 Consensus size: 89
656531 GAAATCATGT
* * * *
656541 AGCCCACATATTCCCAATCATATCCCCTTCGTCCAACCACTAGATGGTATTGATACATCACCAAG
1 AGCCCACACATTCCCAATCATATCCCTTTCATCCAACCACTAGATGGTATTGATGCATCACCAAG
656606 CCTAATTTCCTT-GGGCCAAGGTGC
66 CCTAATTTCCTTAGGG-CAAGGTGC
* * * * * *
656630 AGCCCATACATTCCTAATCATAT-CTTTTCATCCAGCCACTAAATGGTATTAATGCATCACCAAG
1 AGCCCACACATTCCCAATCATATCCCTTTCATCCAACCACTAGATGGTATTGATGCATCACCAAG
656694 CCTAATTTCCTTAGGGCAAGGTGC
66 CCTAATTTCCTTAGGGCAAGGTGC
** *
656718 ATTCCACACATTCCCAATCATATCCCTTTCAGCCAACCACTAGATGGTATTGATGCATCACCAAG
1 AGCCCACACATTCCCAATCATATCCCTTTCATCCAACCACTAGATGGTATTGATGCATCACCAAG
*
656783 CCTAATTTCCTTAAGGCAAGGTGC
66 CCTAATTTCCTTAGGGCAAGGTGC
* * * * * *
656807 AACCCATACATTCCTAATCATATTCCCTTT-ATCCAACCACTAAATAGTATTAATGCATCACCAA
1 AGCCCACACATTCCCAATCATA-TCCCTTTCATCCAACCACTAGATGGTATTGATGCATCACCAA
656871 GCCTAATTTCCTTAGGGCAAGGTGC
65 GCCTAATTTCCTTAGGGCAAGGTGC
* * *
656896 AGCCCACATATTCCTAATCATAGTCCC-TTCATCCAACCACTAGATGGTACTGATGCATCACCAA
1 AGCCCACACATTCCCAATCATA-TCCCTTTCATCCAACCACTAGATGGTATTGATGCATCACCAA
* * *
656960 GCCCAATTTCCTTGGGGCAAGGTAC
65 GCCTAATTTCCTTAGGGCAAGGTGC
* * *
656985 AGCCCACACATTCTCAATCATATTCCATTCA-CTCAACCACTAGATGGTATTGATGCATCACCAA
1 AGCCCACACATTCCCAATCATATCCCTTTCATC-CAACCACTAGATGGTATTGATGCATCACCAA
* *
657049 GCCTAATTTCTTTAAGGCAAGGTGC
65 GCCTAATTTCCTTAGGGCAAGGTGC
* * *
657074 AGCCCACTCATTCCCAATCATATCCCCTTCTC-TCC-A-CACTAGATAGTACTGATGCAT
1 AGCCCACACATTCCCAATCATAT-CCCTT-TCATCCAACCACTAGATGGTATTGATGCAT
657131 TATATGACCA
Statistics
Matches: 436, Mismatches: 56, Indels: 19
0.85 0.11 0.04
Matches are distributed among these distances:
88 98 0.22
89 324 0.74
90 11 0.03
91 3 0.01
ACGTcount: A:0.29, C:0.30, G:0.13, T:0.27
Consensus pattern (89 bp):
AGCCCACACATTCCCAATCATATCCCTTTCATCCAACCACTAGATGGTATTGATGCATCACCAAG
CCTAATTTCCTTAGGGCAAGGTGC
Found at i:657414 original size:35 final size:34
Alignment explanation
Indices: 657307--657420 Score: 122
Period size: 35 Copynumber: 3.3 Consensus size: 34
657297 AAATTTTCTT
* *
657307 TCAAGCTCTTTCCATCATCGTTTGACTGTATCTGG
1 TCAAACTCTTTCCATCATCATTTGACTGTATC-GG
* * * * * *
657342 TCAAATTCTATCCAACATTATTTGACTGCATTTGG
1 TCAAACTCTTTCCATCATCATTTGACTGTA-TCGG
657377 TCAAACTCTTTCCATCATCATTTGACTGTACTCGG
1 TCAAACTCTTTCCATCATCATTTGACTGTA-TCGG
657412 TCAAA-TCTT
1 TCAAACTCTT
657421 ACCCCTCTTG
Statistics
Matches: 63, Mismatches: 15, Indels: 3
0.78 0.19 0.04
Matches are distributed among these distances:
34 4 0.06
35 58 0.92
36 1 0.02
ACGTcount: A:0.24, C:0.25, G:0.12, T:0.39
Consensus pattern (34 bp):
TCAAACTCTTTCCATCATCATTTGACTGTATCGG
Found at i:657467 original size:30 final size:30
Alignment explanation
Indices: 657435--657532 Score: 81
Period size: 30 Copynumber: 3.3 Consensus size: 30
657425 CTCTTGGTTG
*
657435 TATTCGATCAAAACTATCCTCATTTGACTG
1 TATTCGATCAAAACTATCCTCATTTGACTA
* * * * * **
657465 TATTTGGTC-AAATTTTACCCCGCTTGACTA
1 TATTCGATCAAAACTAT-CCTCATTTGACTA
* * *
657495 AATTCGGTCAAGACTATCCTCATTTGACTA
1 TATTCGATCAAAACTATCCTCATTTGACTA
657525 TATTCGAT
1 TATTCGAT
657533 TGTCGCAATG
Statistics
Matches: 48, Mismatches: 18, Indels: 4
0.69 0.26 0.06
Matches are distributed among these distances:
29 5 0.10
30 39 0.81
31 4 0.08
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.38
Consensus pattern (30 bp):
TATTCGATCAAAACTATCCTCATTTGACTA
Found at i:657500 original size:60 final size:60
Alignment explanation
Indices: 657394--657530 Score: 175
Period size: 60 Copynumber: 2.3 Consensus size: 60
657384 CTTTCCATCA
* * ** **
657394 TCATTTGACTGTACTCGGTCAAATCTTACCCCTCTTGGTTGTATTCGATCAAAACTATCC
1 TCATTTGACTGTATTCGGTCAAATCTTACCCCGCTTGACTAAATTCGATCAAAACTATCC
* * * *
657454 TCATTTGACTGTATTTGGTCAAATTTTACCCCGCTTGACTAAATTCGGTCAAGACTATCC
1 TCATTTGACTGTATTCGGTCAAATCTTACCCCGCTTGACTAAATTCGATCAAAACTATCC
*
657514 TCATTTGACTATATTCG
1 TCATTTGACTGTATTCG
657531 ATTGTCGCAA
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
60 65 1.00
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.38
Consensus pattern (60 bp):
TCATTTGACTGTATTCGGTCAAATCTTACCCCGCTTGACTAAATTCGATCAAAACTATCC
Found at i:658535 original size:28 final size:28
Alignment explanation
Indices: 658504--658570 Score: 102
Period size: 27 Copynumber: 2.4 Consensus size: 28
658494 ACAACGGGAC
658504 TGGAGTATCCCCTCA-GAAATAACGGGGT
1 TGGAGTATCCCC-CATGAAATAACGGGGT
*
658532 TGGAGTAT-CCCGATGAAATAACGGGGT
1 TGGAGTATCCCCCATGAAATAACGGGGT
658559 TGGAGTATCCCC
1 TGGAGTATCCCC
658571 GATTGTGAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
26 1 0.03
27 24 0.67
28 11 0.31
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (28 bp):
TGGAGTATCCCCCATGAAATAACGGGGT
Found at i:658627 original size:51 final size:51
Alignment explanation
Indices: 658561--658667 Score: 151
Period size: 51 Copynumber: 2.1 Consensus size: 51
658551 AACGGGGTTG
* **
658561 GAGTATCCCCGATTGTGAAAAATTGATGTTTTGGAAATAAAATCGGAGTTA
1 GAGTATCCCCAATTGTGAAAAATTGATGTTTCAGAAATAAAATCGGAGTTA
* * * *
658612 GAGTATCCTCAATTGTGGAAAATTGATGTTTCAGAAATAAAATCGGGGTTG
1 GAGTATCCCCAATTGTGAAAAATTGATGTTTCAGAAATAAAATCGGAGTTA
658663 GAGTA
1 GAGTA
658668 CCCTTTTGGA
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.35, C:0.09, G:0.25, T:0.31
Consensus pattern (51 bp):
GAGTATCCCCAATTGTGAAAAATTGATGTTTCAGAAATAAAATCGGAGTTA
Found at i:658729 original size:79 final size:81
Alignment explanation
Indices: 658589--658746 Score: 205
Period size: 79 Copynumber: 2.0 Consensus size: 81
658579 AAAATTGATG
* * *
658589 TTTTGGAAATAAAATCGGAGTTAGAGTATCCTCAATTGTGGAAAATTGATGTTTCAGAAATAAAA
1 TTTTGGAAAT-AAATCGGAGTTAGAGTATCCCCAATGGTGGAAAATCGATGTTTCAGAAATAAAA
*
658654 TCGGGGTTGGAGTACCC
65 TCGGGGTTAGAGTACCC
* * * *
658671 TTTTGGAAAT-AA-CGGGGTTAGAGTATCCCCGATGGTGGAAAATCGGTGTTT-TGAAAATAAAA
1 TTTTGGAAATAAATCGGAGTTAGAGTATCCCCAATGGTGGAAAATCGATGTTTCAG-AAATAAAA
658733 TCGGGGTTAGAGTA
65 TCGGGGTTAGAGTA
658747 TCCCCGATTG
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
78 1 0.01
79 54 0.81
80 2 0.03
82 10 0.15
ACGTcount: A:0.33, C:0.10, G:0.27, T:0.30
Consensus pattern (81 bp):
TTTTGGAAATAAATCGGAGTTAGAGTATCCCCAATGGTGGAAAATCGATGTTTCAGAAATAAAAT
CGGGGTTAGAGTACCC
Found at i:658744 original size:51 final size:51
Alignment explanation
Indices: 658683--658800 Score: 166
Period size: 51 Copynumber: 2.3 Consensus size: 51
658673 TTGGAAATAA
* *
658683 CGGGGTTAGAGTATCCCCGATGGTGGAAAATCGGTGTTTT-GAAAATAAAAT
1 CGGGGTTAGAGTATCCCCGATGGTGAAAAATCGATGTTTTAG-AAATAAAAT
* *
658734 CGGGGTTAGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAAT
1 CGGGGTTAGAGTATCCCCGATGGTGAAAAATCGATGTTTTAGAAATAAAAT
* *
658785 CGAGGTTGGAGTATCC
1 CGGGGTTAGAGTATCC
658801 TCTTGGAAAT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
51 59 0.98
52 1 0.02
ACGTcount: A:0.31, C:0.12, G:0.28, T:0.29
Consensus pattern (51 bp):
CGGGGTTAGAGTATCCCCGATGGTGAAAAATCGATGTTTTAGAAATAAAAT
Found at i:658764 original size:130 final size:130
Alignment explanation
Indices: 658546--658880 Score: 508
Period size: 130 Copynumber: 2.6 Consensus size: 130
658536 GTATCCCGAT
* * *
658546 GAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTGGAAATAAAATCGGAGTT
1 GAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAAATAAAATCGGGGTT
* * * *
658611 AGAGTATCCTCAATTGTGGAAAATTGATGTTTCAGAAATAAAATCGGGGTTGGAGTACCCTTTTG
66 AGAGTATCCCCAATTGTGAAAAATTGATGTTTCAGAAATAAAATCGAGGTTGGAGTACCCTCTTG
* * * *
658676 GAAATAACGGGGTTAGAGTATCCCCGATGGTGGAAAATCGGTGTTTTGAAAATAAAATCGGGGTT
1 GAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAAATAAAATCGGGGTT
* * *
658741 AGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAATCGAGGTTGGAGTATCCTCTTG
66 AGAGTATCCCCAATTGTGAAAAATTGATGTTTCAGAAATAAAATCGAGGTTGGAGTACCCTCTTG
* * *
658806 GAAATAACGGGGTTGGAGTATCCTCGATTATGAAAAATTGGTGTTTTGAAAATAAAACCGGGGTT
1 GAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAAATAAAATCGGGGTT
*
658871 GGAGTATCCC
66 AGAGTATCCC
658881 TTCGGAAATA
Statistics
Matches: 183, Mismatches: 22, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
130 183 1.00
ACGTcount: A:0.32, C:0.11, G:0.27, T:0.30
Consensus pattern (130 bp):
GAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAAATAAAATCGGGGTT
AGAGTATCCCCAATTGTGAAAAATTGATGTTTCAGAAATAAAATCGAGGTTGGAGTACCCTCTTG
Found at i:658817 original size:79 final size:78
Alignment explanation
Indices: 658734--658941 Score: 301
Period size: 79 Copynumber: 2.6 Consensus size: 78
658724 AAAATAAAAT
* * * *
658734 CGGGGTTAGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAATCGAGGTTGGAGTAT
1 CGGGGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTT-GAAATAAAACCGAGGTTGGAGTAT
658799 CCTCTT-GGAAATAA
65 CC-CTTCGGAAATAA
* *
658813 CGGGGTTGGAGTATCCTCGATTATGAAAAATTGGTGTTTTGAAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTG-AAATAAAACCGAGGTTGGAGTAT
658878 CCCTTCGGAAATAA
65 CCCTTCGGAAATAA
* *
658892 CGGGTTTGGAGTATCCTCGATTGTAAAAAATTGGTGTTTTGGAAATAAAA
1 CGGGGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTT-GAAATAAAA
658942 ACATGAATGA
Statistics
Matches: 117, Mismatches: 9, Indels: 6
0.89 0.07 0.05
Matches are distributed among these distances:
78 4 0.03
79 112 0.96
80 1 0.01
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.31
Consensus pattern (78 bp):
CGGGGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTGAAATAAAACCGAGGTTGGAGTATC
CCTTCGGAAATAA
Found at i:664476 original size:20 final size:21
Alignment explanation
Indices: 664453--664506 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
664443 AATTTTAGGC
*
664453 ATGTATTGATACGTTTACT-T
1 ATGTATTGATACATTTACTAT
*
664473 ATGTATTGATATATTTACTAT
1 ATGTATTGATACATTTACTAT
*
664494 TTGTATTGATACA
1 ATGTATTGATACA
664507 AATTGTAGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.30, C:0.07, G:0.13, T:0.50
Consensus pattern (21 bp):
ATGTATTGATACATTTACTAT
Found at i:664570 original size:21 final size:21
Alignment explanation
Indices: 664544--664585 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
664534 GTTAAGACCT
664544 TGTATCAATACATCAAAGGCA
1 TGTATCAATACATCAAAGGCA
*
664565 TGTATCGATACATCAAAGGCA
1 TGTATCAATACATCAAAGGCA
664586 AAAATATAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.19, G:0.17, T:0.24
Consensus pattern (21 bp):
TGTATCAATACATCAAAGGCA
Found at i:677035 original size:14 final size:14
Alignment explanation
Indices: 677016--677044 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
677006 GTGAACAGTG
677016 TGAACAGTGATGTA
1 TGAACAGTGATGTA
677030 TGAACAGTGATGTA
1 TGAACAGTGATGTA
677044 T
1 T
677045 CGATACATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.31
Consensus pattern (14 bp):
TGAACAGTGATGTA
Found at i:677084 original size:22 final size:22
Alignment explanation
Indices: 677029--677084 Score: 105
Period size: 21 Copynumber: 2.6 Consensus size: 22
677019 ACAGTGATGT
677029 ATGAACAGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
677051 ATGAA-AGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
677072 ATGAACAGTGATG
1 ATGAACAGTGATG
677085 AATAGTGATG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.64
22 12 0.36
ACGTcount: A:0.38, C:0.11, G:0.25, T:0.27
Consensus pattern (22 bp):
ATGAACAGTGATGTATCGATAC
Found at i:677091 original size:10 final size:10
Alignment explanation
Indices: 677072--677102 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
677062 GTATCGATAC
677072 ATGAACAGTG
1 ATGAACAGTG
*
677082 ATGAATAGTG
1 ATGAACAGTG
677092 ATGAACAGTG
1 ATGAACAGTG
677102 A
1 A
677103 AAATGAGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.29, T:0.23
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:677190 original size:53 final size:53
Alignment explanation
Indices: 677126--677262 Score: 229
Period size: 53 Copynumber: 2.6 Consensus size: 53
677116 CTACTACCAA
*
677126 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAGTGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* *
677179 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
*
677232 TGTATCGATACATATTTGTGTATATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
677263 TATGCAATCT
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
53 66 0.85
54 12 0.15
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:677277 original size:20 final size:21
Alignment explanation
Indices: 677254--677304 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
677244 TATTTGTGTA
677254 TATCGATACTATGC-AATCTG
1 TATCGATACTATGCAAATCTG
* *
677274 TATCGATAC-ATTCAAAATGTG
1 TATCGATACTATGC-AAATCTG
677295 TATCGATACT
1 TATCGATACT
677305 TTTCAGGGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 3 0.12
20 9 0.35
21 14 0.54
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (21 bp):
TATCGATACTATGCAAATCTG
Found at i:677369 original size:21 final size:21
Alignment explanation
Indices: 677343--677383 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
677333 GTCAACCTTG
677343 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
677364 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
677384 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:679855 original size:71 final size:71
Alignment explanation
Indices: 679738--679887 Score: 228
Period size: 71 Copynumber: 2.1 Consensus size: 71
679728 TAGAGGAATA
* **
679738 AGGTTGGAGTGTCCCCGGTGATGACAATTTAGACAAAAATAAGATTTAAAATCTTGACAAGTTTA
1 AGGTTGGAATGTCCCCGACGATGACAATTTAGACAAAAATAAGATTTAAAATCTTGACAAGTTTA
*
679803 AACACG
66 AAAACG
* * * *
679809 GGGTTGGAATGTCCTCGACGATGACAATTTAGGCAAAAATAAGATTTAAAATCTTGACTAGTTTA
1 AGGTTGGAATGTCCCCGACGATGACAATTTAGACAAAAATAAGATTTAAAATCTTGACAAGTTTA
679874 AAAACG
66 AAAACG
679880 AGGTTGGA
1 AGGTTGGA
679888 GTATCTCCTC
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
71 70 1.00
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (71 bp):
AGGTTGGAATGTCCCCGACGATGACAATTTAGACAAAAATAAGATTTAAAATCTTGACAAGTTTA
AAAACG
Found at i:680699 original size:13 final size:13
Alignment explanation
Indices: 680683--680711 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
680673 ATACATTGTT
680683 CATTGTATCGATA
1 CATTGTATCGATA
680696 CATTGTATCGATA
1 CATTGTATCGATA
680709 CAT
1 CAT
680712 GGCTCATTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:680709 original size:33 final size:33
Alignment explanation
Indices: 680665--680733 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
680655 ACATTGTAAT
* * *
680665 TTGTATTGATACATTGTTCATTGTATCGATACA
1 TTGTATCGATACATGGCTCATTGTATCGATACA
680698 TTGTATCGATACATGGCTCATTGTATCGATACA
1 TTGTATCGATACATGGCTCATTGTATCGATACA
680731 TTG
1 TTG
680734 CTCATTGTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.26, C:0.14, G:0.17, T:0.42
Consensus pattern (33 bp):
TTGTATCGATACATGGCTCATTGTATCGATACA
Found at i:680729 original size:53 final size:53
Alignment explanation
Indices: 680645--680752 Score: 164
Period size: 53 Copynumber: 2.0 Consensus size: 53
680635 TTTTCACAAT
* * *
680645 TTGTATCGATACATTGTAATTTGTATTGATACATTGTTCATTGTATCGATACA
1 TTGTATCGATACATGGTAATTTGTATCGATACATTGCTCATTGTATCGATACA
*
680698 TTGTATCGATACATGGCTCA-TTGTATCGATACATTGCTCATTGTATCGATACA
1 TTGTATCGATACATGG-TAATTTGTATCGATACATTGCTCATTGTATCGATACA
680751 TT
1 TT
680753 TTACAATGTA
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
53 48 0.96
54 2 0.04
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.43
Consensus pattern (53 bp):
TTGTATCGATACATGGTAATTTGTATCGATACATTGCTCATTGTATCGATACA
Found at i:680752 original size:20 final size:19
Alignment explanation
Indices: 680645--680772 Score: 124
Period size: 20 Copynumber: 6.8 Consensus size: 19
680635 TTTTCACAAT
*
680645 TTGTATCGATACATTGTAA
1 TTGTATCGATACATTGTCA
*
680664 TTTGTATTGATACATTGTTCA
1 -TTGTATCGATACATTG-TCA
680685 TTGTATCGAT--A----CA
1 TTGTATCGATACATTGTCA
*
680698 TTGTATCGATACATGGCTCA
1 TTGTATCGATACATTG-TCA
680718 TTGTATCGATACATTGCTCA
1 TTGTATCGATACATTG-TCA
*
680738 TTGTATCGATACATTTTACA
1 TTGTATCGATACATTGT-CA
*
680758 ATGTATCGATACATT
1 TTGTATCGATACATT
680773 CAGGCATTTT
Statistics
Matches: 93, Mismatches: 6, Indels: 18
0.79 0.05 0.15
Matches are distributed among these distances:
13 12 0.13
15 1 0.01
18 1 0.01
19 1 0.01
20 76 0.82
21 2 0.02
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (19 bp):
TTGTATCGATACATTGTCA
Found at i:683354 original size:28 final size:28
Alignment explanation
Indices: 683305--683378 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
683295 ATTCATAATC
* * *
683305 GGGGGTACCCCAACCCCGTTATGTCATTA
1 GGGGATACTCCAACCCCGTTATGTC-TGA
* *
683334 -GGGATACTCCAATCCCGTTATTTCTGA
1 GGGGATACTCCAACCCCGTTATGTCTGA
683361 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
683379 ATTTTATTCC
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
27 2 0.05
28 36 0.95
ACGTcount: A:0.22, C:0.31, G:0.23, T:0.24
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATGTCTGA
Found at i:683423 original size:79 final size:79
Alignment explanation
Indices: 683334--683502 Score: 302
Period size: 79 Copynumber: 2.1 Consensus size: 79
683324 TATGTCATTA
*
683334 GGGATACTCCAATCCCGTTATTTCTGAGGGGATACTCCAACCCCGATTTTATTCCCAAGATACCA
1 GGGATACTCCAATCCCGTTATTTCTGAGGGGATACTCCAACCCCGATTTTATTCCCAAAATACCA
*
683399 GTTTTTCACAATCG
66 ATTTTTCACAATCG
* *
683413 GGGATACTCCAATCCCGTTATTTCTGAGGGGATACTCCAACCCCGATTTTATTTCTAAAATACCA
1 GGGATACTCCAATCCCGTTATTTCTGAGGGGATACTCCAACCCCGATTTTATTCCCAAAATACCA
683478 ATTTTTCACAATCG
66 ATTTTTCACAATCG
683492 GGGATACTCCA
1 GGGATACTCCA
683503 GCTCCGATTT
Statistics
Matches: 86, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
79 86 1.00
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.31
Consensus pattern (79 bp):
GGGATACTCCAATCCCGTTATTTCTGAGGGGATACTCCAACCCCGATTTTATTCCCAAAATACCA
ATTTTTCACAATCG
Found at i:683495 original size:51 final size:51
Alignment explanation
Indices: 683440--683558 Score: 168
Period size: 51 Copynumber: 2.3 Consensus size: 51
683430 TTATTTCTGA
* **
683440 GGGGATACTCCAACCCCGATTTTA-TTTCTAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTTC-AAAACACCAATTTCCCACAATC
* * *
683491 GGGGATACTCCAGCTCCGATTTTATTTTCAAAACACCAATTTCCCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTCCCACAATC
683542 GGGGATACTCCAACCCC
1 GGGGATACTCCAACCCC
683559 CTTATTTTTT
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
51 55 0.93
52 4 0.07
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.29
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTCCCACAATC
Found at i:683513 original size:130 final size:130
Alignment explanation
Indices: 683361--683635 Score: 349
Period size: 130 Copynumber: 2.1 Consensus size: 130
683351 TTATTTCTGA
* * * ** *
683361 GGGGATACTCCAACCCCGATTTTATTCCCAAGATACCAGTTTTTCACAATCGGGGATACTCCAAT
1 GGGGATACTCCAACCCCGATTTTATTCCCAAAACACCAATTTCCCACAATCGGGGATACTCCAAC
*
683426 CCCGTTA-TTTCTGAGGGGATACTCCAACCCCGATTTTA-TTTCTAAAATACCAATTTT-TCACA
66 CCCCTTATTTTCTGA-GGGATACTCCAACCCCGATTTTATTTTC-AAAATACCAATTTTCT-ACA
683488 ATC
128 ATC
* * ** *
683491 GGGGATACTCCAGCTCCGATTTTATTTTCAAAACACCAATTTCCCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTCCCAAAACACCAATTTCCCACAATCGGGGATACTCCAAC
* * * *
683556 CCCCTTATTTTTTGAGGGATACTCCAACCCCGATTTTATTTTCAAAATATCGATTTTCTATAATC
66 CCCCTTATTTTCTGAGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTCTACAATC
*
683621 AGGGATACTCCAACC
1 GGGGATACTCCAACC
683636 TCGTTATTTT
Statistics
Matches: 123, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
130 112 0.91
131 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (130 bp):
GGGGATACTCCAACCCCGATTTTATTCCCAAAACACCAATTTCCCACAATCGGGGATACTCCAAC
CCCCTTATTTTCTGAGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTCTACAATC
Found at i:683671 original size:79 final size:79
Alignment explanation
Indices: 683492--683663 Score: 229
Period size: 79 Copynumber: 2.2 Consensus size: 79
683482 TTCACAATCG
* * *
683492 GGGATACTCCAGCTCCGATTTTATTTTCAAAACACCAATTTCCCATAATCGGGGATACTCCAACC
1 GGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTCCCATAATCAGGGATACTCCAACC
*
683557 CCCTTATTTTTTGA
66 CCCTTATTTTTCGA
* * * * *
683571 GGGATACTCCAACCCCGATTTTATTTTCAAAATATCGATTTTCTATAATCAGGGATACTCCAACC
1 GGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTCCCATAATCAGGGATACTCCAACC
* *
683636 TCGTTA-TTTTCGA
66 CCCTTATTTTTCGA
683649 GAGGATACTCCAACC
1 G-GGATACTCCAACC
683664 TTGATTTTTT
Statistics
Matches: 81, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
78 7 0.09
79 74 0.91
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (79 bp):
GGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTCCCATAATCAGGGATACTCCAACC
CCCTTATTTTTCGA
Found at i:692648 original size:24 final size:24
Alignment explanation
Indices: 692616--692663 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
692606 CCGTAAGCTT
692616 TATTTTGGATGGTGAAGTCTTATA
1 TATTTTGGATGGTGAAGTCTTATA
692640 TATTTTGGATGGTGAAGTCTTATA
1 TATTTTGGATGGTGAAGTCTTATA
692664 CAAGAAAGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.04, G:0.25, T:0.46
Consensus pattern (24 bp):
TATTTTGGATGGTGAAGTCTTATA
Found at i:695000 original size:55 final size:55
Alignment explanation
Indices: 694933--695063 Score: 194
Period size: 55 Copynumber: 2.4 Consensus size: 55
694923 TTCACCCTTT
* *
694933 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGT-TGGTGGCATCTTTCT
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTAT-GTGGCA-CTTCCC
*
694989 A-TCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTATGTGGCACTTCCC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTATGTGGCACTTCCC
*
695043 AGTCCTCAAAGAGCAAGACGC
1 AGTCCTCAAAGAGCAGGACGC
695064 TCTCTCCTTT
Statistics
Matches: 69, Mismatches: 4, Indels: 5
0.88 0.05 0.06
Matches are distributed among these distances:
54 5 0.07
55 62 0.90
56 2 0.03
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.20
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTATGTGGCACTTCCC
Found at i:695212 original size:55 final size:56
Alignment explanation
Indices: 695082--695213 Score: 203
Period size: 56 Copynumber: 2.4 Consensus size: 56
695072 TTCACCCTTT
** **
695082 AGTCCTCAAAGAGCAGGACAACTTTCAAAGCCCACACAAGTTGGTGGAACCTTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGAACCTTCCC
* *
695138 AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGAACCTTCCC
695193 AGTCCTCAAAGAGCAGGACGC
1 AGTCCTCAAAGAGCAGGACGC
695214 TCTCTCATTT
Statistics
Matches: 70, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
55 25 0.36
56 45 0.64
ACGTcount: A:0.30, C:0.29, G:0.22, T:0.19
Consensus pattern (56 bp):
AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGAACCTTCCC
Found at i:695213 original size:150 final size:149
Alignment explanation
Indices: 694859--695307 Score: 717
Period size: 149 Copynumber: 3.0 Consensus size: 149
694849 GATGCCTTTT
*
694859 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCTCTCTCTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCTCTCTCATT
*
694924 TCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-TCTTTC
66 TCACCCTTTAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACT-TTTC
694988 TA-TCCTCAAAGAGCAGGACG
130 -AGTCCTCAAAGAGCAGGACG
* *
695008 CCTTTTAAAGCCCACACAAGTAT-GTGGCACTTCCCAGTCCTCAAAGAGCAAGACGCTCTCTCCT
1 CCTTTTAAAGCCCACACAAGT-TGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCTCTCTCAT
* *
695072 TTCACCCTTTAGTCCTCAAAGAGCAGGACAACTTTCAAAGCCCACACAAGTTGGTGGAACCTTTT
65 TTCACCCTTTAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-CTTTT
695137 CAGTCCTCAAAGAGCAGGACG
129 CAGTCCTCAAAGAGCAGGACG
695158 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCTCTCTCATT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCTCTCTCATT
* * * **
695223 TCGCCCTTTAGTCCTTAAAGAGTAGGA-AGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCC
66 TCACCCTTTAGTCCTCAAAGAGCAGGACA-CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC
*
695287 AGTCCTCAAAGAGTAGGACG
130 AGTCCTCAAAGAGCAGGACG
695307 C
1 C
695308 TCTCTCCTTT
Statistics
Matches: 279, Mismatches: 15, Indels: 12
0.91 0.05 0.04
Matches are distributed among these distances:
149 143 0.51
150 135 0.48
151 1 0.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (149 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCTCTCTCATT
TCACCCTTTAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCA
GTCCTCAAAGAGCAGGACG
Found at i:695264 original size:244 final size:249
Alignment explanation
Indices: 694990--695457 Score: 693
Period size: 244 Copynumber: 1.9 Consensus size: 249
694980 CATCTTTCTA
* *
694990 TCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTAT-GTGGCACTTCCCAGTCCTCAAAG
1 TCCTCAAAGAGCAGGAAGCCTTTCAAAGCCCACACAAGT-TGGTGGCACTTCCCAGTCCTCAAAG
*
695054 AGCAAGACGCTCTCTCCTTTCACCCTTTAGTCCTCAAAGAGCAGGACAAC-TTTCAAAGCCCACA
65 AGCAAGACGCTCTCTCCTTTCACCCTTTAGTCCTCAAAGAGCAAGAC-ACTTTTCAAAGCCCACA
695118 CAAGTTGGTGGAACCTTTTC-AGTCCTCAAAGAGC-AG-GAC-GC-CTTTT-AAAGCCCACACAA
129 CAAGTTGGTGGAA-CTTTTCTAGTCCTCAAAGAGCAAGAGACTGCTCTTTTCAAAGCCCACACAA
695177 GTTGGTGGCA-CTTCCCAGTCCTCAAAGAGCAGGACGCTCTCTCATTTCGCCCTTTAG
193 GTTGGTGGCACCTT-CCAGTCCTCAAAGAGCAGGACGCTCTCTCATTTCGCCCTTTAG
* *
695234 TCCTTAAAGAGTAGGAAGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGA
1 TCCTCAAAGAGCAGGAAGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGA
* * * * * *
695299 GTAGGACGCTCTCTCCTTTCGCCCTTTAGTTCTCAAAGAGCAAGACGCTTTTTAAAGCCCACACA
66 GCAAGACGCTCTCTCCTTTCACCCTTTAGTCCTCAAAGAGCAAGACACTTTTCAAAGCCCACACA
* * * *
695364 AGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAAGATGCCTTCTCTTTTCAAAGCCTACACAAGT
131 AGTTGGTGGAACTTTTCTAGTCCTCAAAGAGCAAGA-GACTGCTCTTTTCAAAGCCCACACAAGT
695429 TGGTGGCACCTTCCAGTCCTCAAAGAGCA
195 TGGTGGCACCTTCCAGTCCTCAAAGAGCA
695458 TGATGCATTT
Statistics
Matches: 199, Mismatches: 15, Indels: 14
0.87 0.07 0.06
Matches are distributed among these distances:
243 8 0.04
244 139 0.70
245 2 0.01
247 2 0.01
248 1 0.01
249 5 0.03
250 39 0.20
251 3 0.02
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (249 bp):
TCCTCAAAGAGCAGGAAGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGA
GCAAGACGCTCTCTCCTTTCACCCTTTAGTCCTCAAAGAGCAAGACACTTTTCAAAGCCCACACA
AGTTGGTGGAACTTTTCTAGTCCTCAAAGAGCAAGAGACTGCTCTTTTCAAAGCCCACACAAGTT
GGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGCTCTCTCATTTCGCCCTTTAG
Found at i:695299 original size:94 final size:94
Alignment explanation
Indices: 695138--695396 Score: 410
Period size: 94 Copynumber: 2.7 Consensus size: 94
695128 GAACCTTTTC
695138 AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAA
1 AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAA
695203 GAGCAGGACGCTCTCTCATTTCGCCCTTT
66 GAGCAGGACGCTCTCTCATTTCGCCCTTT
* * * *
695232 AGTCCTTAAAGAGTAGGAAGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAA
1 AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAA
* *
695297 GAGTAGGACGCTCTCTCCTTTCGCCCTTT
66 GAGCAGGACGCTCTCTCATTTCGCCCTTT
* * * * *
695326 AGTTCTCAAAGAGCAAGACGCTTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAA
1 AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCAC-TTCCCAGTCCTCAA
695391 AGAGCA
65 AGAGCA
695397 AGATGCCTTC
Statistics
Matches: 148, Mismatches: 16, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
94 131 0.89
95 17 0.11
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (94 bp):
AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAA
GAGCAGGACGCTCTCTCATTTCGCCCTTT
Found at i:695474 original size:61 final size:62
Alignment explanation
Indices: 695347--695474 Score: 177
Period size: 61 Copynumber: 2.1 Consensus size: 62
695337 AGCAAGACGC
* * * * *
695347 TTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAAGATGCCTTCTC
1 TTTTCAAAGCCCACACAAGTTGGTGGCACTCTTCCAGTCCTCAAAGAGCAAGATGCATTCTA
* * *
695409 TTTTCAAAGCCTACACAAGTTGGTGGCAC-CTTCCAGTCCTCAAAGAGCATGATGCATTTTA
1 TTTTCAAAGCCCACACAAGTTGGTGGCACTCTTCCAGTCCTCAAAGAGCAAGATGCATTCTA
695470 TTTTC
1 TTTTC
695475 CTCTTTCCTT
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
61 31 0.53
62 27 0.47
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (62 bp):
TTTTCAAAGCCCACACAAGTTGGTGGCACTCTTCCAGTCCTCAAAGAGCAAGATGCATTCTA
Found at i:695569 original size:45 final size:45
Alignment explanation
Indices: 695444--695574 Score: 119
Period size: 45 Copynumber: 3.0 Consensus size: 45
695434 GCACCTTCCA
* * * *
695444 GTCCTCAAAGAGCATGATGCATTT-TATTTTCC---TCTTTCCTTT
1 GTCCTCAAAGAGCAGGACGCATTTCT-TTTTCCTTTTTTTTCTTTT
* * * * *
695486 GTCCTCAAAGAGTAGGACACACTTC-ATTCCCTTCTTTTTTCTTTT
1 GTCCTCAAAGAGCAGGACGCATTTCTTTTTCCTT-TTTTTTCTTTT
*
695531 GTCCTCAAAGAGCAGGACGCATTTCTTTTTCCTTTTTTTCCTTT
1 GTCCTCAAAGAGCAGGACGCATTTCTTTTTCCTTTTTTTTCTTT
695575 ATCTTTGAAA
Statistics
Matches: 68, Mismatches: 15, Indels: 9
0.74 0.16 0.10
Matches are distributed among these distances:
41 4 0.06
42 19 0.28
45 39 0.57
46 6 0.09
ACGTcount: A:0.18, C:0.25, G:0.12, T:0.44
Consensus pattern (45 bp):
GTCCTCAAAGAGCAGGACGCATTTCTTTTTCCTTTTTTTTCTTTT
Found at i:695627 original size:35 final size:35
Alignment explanation
Indices: 695588--695702 Score: 81
Period size: 35 Copynumber: 3.1 Consensus size: 35
695578 TTTGAAAAGT
695588 AGGACGTACTTTTTTTCACTTTGCCCTCAAGAAGC
1 AGGACGTACTTTTTTTCACTTTGCCCTCAAGAAGC
* * * * *
695623 AGGACACTTCCCTTTTCTTTTTTC-CTTTATCCTTGAA-AAGC
1 AGG--ACGT-AC---T-TTTTTTCACTTT-GCCCTCAAGAAGC
* *
695664 AGGACGTACTCTTTTTCACTTTGCCCTTAAGAAGC
1 AGGACGTACTTTTTTTCACTTTGCCCTCAAGAAGC
695699 AGGA
1 AGGA
695703 AACTTCCCTT
Statistics
Matches: 59, Mismatches: 11, Indels: 20
0.66 0.12 0.22
Matches are distributed among these distances:
34 11 0.19
35 16 0.27
37 3 0.05
38 2 0.03
39 3 0.05
41 12 0.20
42 12 0.20
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.37
Consensus pattern (35 bp):
AGGACGTACTTTTTTTCACTTTGCCCTCAAGAAGC
Found at i:695659 original size:76 final size:76
Alignment explanation
Indices: 695564--695731 Score: 282
Period size: 76 Copynumber: 2.2 Consensus size: 76
695554 TCTTTTTCCT
* * * *
695564 TTTTTTCCTTTATCTTTGAAAAGTAGGACGTACTTTTTTTCACTTTGCCCTCAAGAAGCAGGACA
1 TTTTTTCCTTTATCCTTGAAAAGCAGGACGTACTCTTTTTCACTTTGCCCTCAAGAAGCAGGAAA
695629 CTTCCCTTTTC
66 CTTCCCTTTTC
*
695640 TTTTTTCCTTTATCCTTGAAAAGCAGGACGTACTCTTTTTCACTTTGCCCTTAAGAAGCAGGAAA
1 TTTTTTCCTTTATCCTTGAAAAGCAGGACGTACTCTTTTTCACTTTGCCCTCAAGAAGCAGGAAA
695705 CTTCCCTTTTC
66 CTTCCCTTTTC
*
695716 TTTTTTCCTTTGTCCT
1 TTTTTTCCTTTATCCT
695732 CAAGGAGCAC
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
76 86 1.00
ACGTcount: A:0.20, C:0.24, G:0.12, T:0.43
Consensus pattern (76 bp):
TTTTTTCCTTTATCCTTGAAAAGCAGGACGTACTCTTTTTCACTTTGCCCTCAAGAAGCAGGAAA
CTTCCCTTTTC
Found at i:695718 original size:41 final size:40
Alignment explanation
Indices: 695599--695720 Score: 114
Period size: 41 Copynumber: 3.1 Consensus size: 40
695589 GGACGTACTT
*
695599 TTTTTCACTTTGCCCTCAAGAAGCAGGACACTTCCCTTTTC
1 TTTTTCACTTTGCCCTTAAGAAGCAGGA-ACTTCCCTTTTC
** * *
695640 TTTTTTC-CTTTATCCTTGAA-AAGCAGG-ACGT-AC---TC
1 -TTTTTCACTTTGCCCTT-AAGAAGCAGGAACTTCCCTTTTC
695675 TTTTTCACTTTGCCCTTAAGAAGCAGGAAACTTCCCTTTTC
1 TTTTTCACTTTGCCCTTAAGAAGCAGG-AACTTCCCTTTTC
695716 TTTTT
1 TTTTT
695721 TCCTTTGTCC
Statistics
Matches: 62, Mismatches: 9, Indels: 19
0.69 0.10 0.21
Matches are distributed among these distances:
34 8 0.13
35 17 0.27
37 3 0.05
38 2 0.03
39 3 0.05
41 21 0.34
42 8 0.13
ACGTcount: A:0.20, C:0.26, G:0.12, T:0.41
Consensus pattern (40 bp):
TTTTTCACTTTGCCCTTAAGAAGCAGGAACTTCCCTTTTC
Found at i:696293 original size:20 final size:20
Alignment explanation
Indices: 696268--696377 Score: 89
Period size: 20 Copynumber: 5.0 Consensus size: 20
696258 TTTTCACAAT
696268 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
696288 TTGTATCGATACATTCTAGGTTTATCCA
1 TTGTATCGATACA-T-T--G--T-T-CA
*
696316 GATGTATCGATACATT-TTGCA
1 -TTGTATCGATACATTGTT-CA
696337 TTGTATCGATACA-TGTCTCA
1 TTGTATCGATACATTGT-TCA
*
696357 TTGTATCGATACATTGCTCA
1 TTGTATCGATACATTGTTCA
696377 T
1 T
696378 AAAATGTATC
Statistics
Matches: 74, Mismatches: 4, Indels: 24
0.73 0.04 0.24
Matches are distributed among these distances:
19 1 0.01
20 45 0.61
21 7 0.09
22 2 0.03
24 1 0.01
26 1 0.01
27 2 0.03
28 3 0.04
29 12 0.16
ACGTcount: A:0.25, C:0.17, G:0.15, T:0.42
Consensus pattern (20 bp):
TTGTATCGATACATTGTTCA
Found at i:698849 original size:51 final size:51
Alignment explanation
Indices: 698682--698851 Score: 164
Period size: 51 Copynumber: 3.3 Consensus size: 51
698672 ATATTTCATC
* ** * **
698682 TCGGGGATACTCCAA-TCCCGGTTCCATTTCCAAAACATCAATTTTTCTTAA
1 TCGGGGATACTCCAACT-CCGATTTTATTTTCAAAACATCAATTTTTCACAA
* * * * * *
698733 TCGGGGATACTCCCACTCTGATTTT-TTTTAAAAAAGCATCGATTTATCGCAA
1 TCGGGGATACTCCAACTCCGATTTTATTTT-CAAAA-CATCAATTTTTCACAA
* *
698785 TCGAGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTTCACAA
1 TCGGGGATACTCCAACTCCGATTTTATTTTCAAAACATCAATTTTTCACAA
*
698836 TTGGGGATACTCCAAC
1 TCGGGGATACTCCAAC
698852 CCCGTTATTT
Statistics
Matches: 94, Mismatches: 21, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
50 3 0.03
51 48 0.51
52 39 0.41
53 4 0.04
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (51 bp):
TCGGGGATACTCCAACTCCGATTTTATTTTCAAAACATCAATTTTTCACAA
Found at i:699025 original size:107 final size:107
Alignment explanation
Indices: 698839--699066 Score: 268
Period size: 107 Copynumber: 2.1 Consensus size: 107
698829 TTCACAATTG
* * * **
698839 GGGATACTCCAACCCCGTTATTTCCGAAGGGATACTCCAACCCCAGCTTTATATCTAAAATATTG
1 GGGATACTCCAACCCCGTTATTCCCGAAGGGATACTCCAACCCCAGATTTATATCTAAAACACAG
* * *
698904 ATTTTTCATAATCGGGGGTACCCCAA-CCCTGTTATGTCAT-CA
66 ATTTTTCACAATCGGGGATACCCCAATCCC-GTTATGTC-TGAA
* *
698946 GGGATACTCCAATCCCGTTATTCCCGAGGGGATACTCCAACCCC-GATTT-TACTCTCAAAACAC
1 GGGATACTCCAACCCCGTTATTCCCGAAGGGATACTCCAACCCCAGATTTATA-TCT-AAAACA-
* *
699009 CAG-TTTTTCACAATCGGGGATACTCCAATCCCGTTATTTCTGAA
63 CAGATTTTTCACAATCGGGGATACCCCAATCCCGTTATGTCTGAA
699053 GGGATACTCCAACC
1 GGGATACTCCAACC
699067 TCGATTTTAT
Statistics
Matches: 103, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
105 2 0.02
106 8 0.08
107 89 0.86
108 4 0.04
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.28
Consensus pattern (107 bp):
GGGATACTCCAACCCCGTTATTCCCGAAGGGATACTCCAACCCCAGATTTATATCTAAAACACAG
ATTTTTCACAATCGGGGATACCCCAATCCCGTTATGTCTGAA
Found at i:699095 original size:79 final size:79
Alignment explanation
Indices: 698946--699112 Score: 246
Period size: 79 Copynumber: 2.1 Consensus size: 79
698936 TATGTCATCA
*
698946 GGGATACTCCAATCCCGTTATTCCCGAGGGGATACTCCAACCCCGATTTTACTCTCAAAACACCA
1 GGGATACTCCAATCCCGTTATTCCCGAAGGGATACTCCAACCCCGATTTTACTCTCAAAACACCA
*
699011 GTTTTTCACAATCG
66 ATTTTTCACAATCG
* * * * *
699025 GGGATACTCCAATCCCGTTATTTCTGAAGGGATACTCCAACCTCGATTTTA-TTTCTAAAATACC
1 GGGATACTCCAATCCCGTTATTCCCGAAGGGATACTCCAACCCCGATTTTACTCTC-AAAACACC
699089 AATTTTTCACAATCG
65 AATTTTTCACAATCG
*
699104 AGGATACTC
1 GGGATACTC
699113 TAGCTCCGAT
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
78 3 0.04
79 76 0.96
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (79 bp):
GGGATACTCCAATCCCGTTATTCCCGAAGGGATACTCCAACCCCGATTTTACTCTCAAAACACCA
ATTTTTCACAATCG
Found at i:699190 original size:79 final size:79
Alignment explanation
Indices: 699105--699333 Score: 203
Period size: 79 Copynumber: 2.9 Consensus size: 79
699095 TCACAATCGA
* * * *
699105 GGATACTCT-AGCTCCGATTTTATTTCCAAAACACCAATTTCCCATAGTCGGGGATATTCCAA-C
1 GGATACTCTAACCT-CGATTTTATTTCCAAAACACCAATTTCCCATAATCAGGGATACTCCAACC
* *
699168 CTCGTTATTTTTGCGG
65 CT-GTTATTTTCGAGG
** * * * *
699184 GGATACTCTAACCTCGATTTTATTTTTAAAATACCGATTTTCTATAATCAGGGATACTCCAACCC
1 GGATACTCTAACCTCGATTTTATTTCCAAAACACCAATTTCCCATAATCAGGGATACTCCAACCC
699249 TGTTATTTTCGAGG
66 TGTTATTTTCGAGG
* * * * * * * * *
699263 GGATACTCCAATCC-CAATTTTTTATTTCTAGAACACCGATTTTCCATAATCAGGGAGACTCTAG
1 GGATACTCTAA-CCTCGA--TTTTATTTCCAAAACACCAATTTCCCATAATCAGGGATACTCCAA
699327 CCCTGTT
63 CCCTGTT
699334 GTTATCTCTA
Statistics
Matches: 124, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
79 71 0.57
80 8 0.06
81 45 0.36
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (79 bp):
GGATACTCTAACCTCGATTTTATTTCCAAAACACCAATTTCCCATAATCAGGGATACTCCAACCC
TGTTATTTTCGAGG
Found at i:702345 original size:21 final size:21
Alignment explanation
Indices: 702298--702351 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
702288 GACATGGTCC
702298 TATATCGATACATTTCAAACA
1 TATATCGATACATTTCAAACA
* * *
702319 TGTATCGATACA-TTCACATA
1 TATATCGATACATTTCAAACA
702339 TTATATCGATACA
1 -TATATCGATACA
702352 GCTTGTAGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 6 0.21
21 22 0.79
ACGTcount: A:0.39, C:0.19, G:0.07, T:0.35
Consensus pattern (21 bp):
TATATCGATACATTTCAAACA
Found at i:705342 original size:22 final size:21
Alignment explanation
Indices: 705314--705354 Score: 73
Period size: 21 Copynumber: 1.9 Consensus size: 21
705304 AATATCTTTA
705314 TTTTTTTCTCTTTTTCTTTCGT
1 TTTTTTTCT-TTTTTCTTTCGT
705336 TTTTTTTCTTTTTTCTTTC
1 TTTTTTTCTTTTTTCTTTC
705355 TACTTTCTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.80
Consensus pattern (21 bp):
TTTTTTTCTTTTTTCTTTCGT
Found at i:713804 original size:13 final size:13
Alignment explanation
Indices: 713786--713813 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
713776 ATACAAAGGT
713786 CAATGTATCGATA
1 CAATGTATCGATA
713799 CAATGTATCGATA
1 CAATGTATCGATA
713812 CA
1 CA
713814 TTTGAGTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:713876 original size:13 final size:13
Alignment explanation
Indices: 713858--713909 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
713848 AGCTTCGTAG
713858 CGATACATTGTAT
1 CGATACATTGTAT
713871 CGATACCAAACTTATGTAT
1 CGATA-C--A-TT--GTAT
713890 CGATACATTGTAT
1 CGATACATTGTAT
713903 CGATACA
1 CGATACA
713910 GTTACAGTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 16 0.48
14 1 0.03
15 2 0.06
16 2 0.06
17 2 0.06
18 1 0.03
19 9 0.27
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:714822 original size:49 final size:49
Alignment explanation
Indices: 714658--715077 Score: 336
Period size: 49 Copynumber: 8.9 Consensus size: 49
714648 ATGCGAAGAA
* * * * *
714658 TGCCAATGTGCTGATTCATGGCCAGCGATATTAGATTTGAAGAAGAA--
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* ** ** * * * *
714705 TGGCAATGTGCTGAGACAAGGCCAATGACATTAGG-CTTAGGAATGTTAAAGA
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATT-GGACTTA--AA-GATGAAGG
* * * *
714757 TGCCAATATGCTGATTCAAGGCCAACAATATTAGACTTAAAGATGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* *
714806 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGA-CAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * * *
714854 TGCCAATATGCTAATTCAAGGCCAGTGATATTGGGC-T-----T--A--
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * * *
714893 TGCCAATGTGCCGATTCAAGGCCAGCGACATTGGTCTT--AGA-GATGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * * *
714939 TGCCAATATGCTGATTCAAGACCAGTGATATTGGACTTAAAGATGAAGA
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * *
714988 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACGTAAAGA-CAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * *
715036 TGCCAATATGTTGATTCAAGGCCAGTGATATTGGACTTAAAG
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
715078 GTGCCACGGA
Statistics
Matches: 292, Mismatches: 62, Indels: 37
0.75 0.16 0.09
Matches are distributed among these distances:
39 30 0.10
40 1 0.00
41 1 0.00
46 32 0.11
47 28 0.10
48 79 0.27
49 86 0.29
50 5 0.02
51 1 0.00
52 29 0.10
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (49 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
Found at i:714873 original size:48 final size:48
Alignment explanation
Indices: 714757--715077 Score: 340
Period size: 48 Copynumber: 6.9 Consensus size: 48
714747 ATGTTAAAGA
* * *
714757 TGCCAATATGCTGATTCAAGGCCAACAATATTAGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA-GAAGG
* * *
714806 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGACAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAGAAGG
* * *
714854 TGCCAATATGCTAATTCAAGGCCAGTGATATTGGGCTT-------A--
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAGAAGG
* * * * *
714893 TGCCAATGTGCCGATTCAAGGCCAGCGACATTGGTCTT--AGAGATGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAGAAGG
* * *
714939 TGCCAATATGCTGATTCAAGACCAGTGATATTGGACTTAAAGATGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA-GAAGG
* * * *
714988 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACGTAAAGACAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAGAAGG
* *
715036 TGCCAATATGTTGATTCAAGGCCAGTGATATTGGACTTAAAG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
715078 GTGCCACGGA
Statistics
Matches: 224, Mismatches: 38, Indels: 21
0.79 0.13 0.07
Matches are distributed among these distances:
39 32 0.14
41 1 0.00
46 32 0.14
48 80 0.36
49 79 0.35
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (48 bp):
TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAGAAGG
Found at i:714885 original size:97 final size:96
Alignment explanation
Indices: 714658--715077 Score: 436
Period size: 97 Copynumber: 4.4 Consensus size: 96
714648 ATGCGAAGAA
* * * * * * * * **
714658 TGCCAATGTGCTGATTCATGGCCAGCGATATTAGATTTGAAGAAGAA-TGGCAATGTGCTGAGAC
1 TGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATGAAGTGCCAATGTGCTGATTC
** *
714722 AAGGCCAATGACATTAGG-CTTAGGAATGTTA-AAGA
66 AAGGCCAGCGACATT-GGACTTA--AA-G--ACAAGG
*** *
714757 TGCCAATATGCTGATTCAAGGCCAACAATATTAGACTTAAAGATGAAGGTGCCAATGTGCTGATT
1 TGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATGAA-GTGCCAATGTGCTGATT
714822 CAAGGCCAGCGACATTGGACTTAAAGACAAGG
65 CAAGGCCAGCGACATTGGACTTAAAGACAAGG
* * *
714854 TGCCAATATGCTAATTCAAGGCCAGTGATATTGGGC-T-----T--A-TGCCAATGTGCCGATTC
1 TGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATGAAGTGCCAATGTGCTGATTC
* * *
714910 AAGGCCAGCGACATTGGTCTT--AGAGATGG
66 AAGGCCAGCGACATTGGACTTAAAGACAAGG
*
714939 TGCCAATATGCTGATTCAAGACCAGTGATATTGGACTTAAAGATGAAGATGCCAATGTGCTGATT
1 TGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATGAAG-TGCCAATGTGCTGATT
*
715004 CAAGGCCAGCGACATTGGACGTAAAGACAAGG
65 CAAGGCCAGCGACATTGGACTTAAAGACAAGG
*
715036 TGCCAATATGTTGATTCAAGGCCAGTGATATTGGACTTAAAG
1 TGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAG
715078 GTGCCACGGA
Statistics
Matches: 272, Mismatches: 33, Indels: 34
0.80 0.10 0.10
Matches are distributed among these distances:
85 39 0.14
86 1 0.00
87 36 0.13
89 1 0.00
91 2 0.01
93 1 0.00
95 35 0.13
96 2 0.01
97 79 0.29
98 1 0.00
99 42 0.15
100 2 0.01
101 31 0.11
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (96 bp):
TGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATGAAGTGCCAATGTGCTGATTC
AAGGCCAGCGACATTGGACTTAAAGACAAGG
Found at i:715115 original size:32 final size:33
Alignment explanation
Indices: 715074--715163 Score: 137
Period size: 32 Copynumber: 2.8 Consensus size: 33
715064 TATTGGACTT
715074 AAAGGTGCCACGGAGTTGTGGACTTAAAAAG-A
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAAGAA
* *
715106 AAAGGTGCCACGGAGTTGTGGCCTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAAGAA
* *
715139 AAAGATGCCACGGACTTGTGGACTT
1 AAAGGTGCCACGGAGTTGTGGACTT
715164 TTGAAGGTTG
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
32 29 0.56
33 23 0.44
ACGTcount: A:0.33, C:0.16, G:0.31, T:0.20
Consensus pattern (33 bp):
AAAGGTGCCACGGAGTTGTGGACTTAAAAAGAA
Found at i:715185 original size:28 final size:28
Alignment explanation
Indices: 715144--715250 Score: 110
Period size: 28 Copynumber: 3.8 Consensus size: 28
715134 AGGAAAAAGA
*
715144 TGCCACGGACTTGTGGACTTTTGAAGGT
1 TGCCACTGACTTGTGGACTTTTGAAGGT
* *
715172 TGCCACTGATTTGTAGG-C-TTTGAAAAAGGG
1 TGCCACTGACTTGT-GGACTTTTG---AAGGT
* *
715202 TGCCAATGACTTGTGGGCTTTTGAAGGT
1 TGCCACTGACTTGTGGACTTTTGAAGGT
*
715230 TGCCACTGACTTGTAGACTTT
1 TGCCACTGACTTGTGGACTTT
715251 GGAAAAGATG
Statistics
Matches: 64, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
27 4 0.06
28 35 0.55
29 4 0.06
30 17 0.27
31 4 0.06
ACGTcount: A:0.21, C:0.17, G:0.29, T:0.34
Consensus pattern (28 bp):
TGCCACTGACTTGTGGACTTTTGAAGGT
Found at i:716649 original size:1 final size:1
Alignment explanation
Indices: 716645--716728 Score: 60
Period size: 1 Copynumber: 84.0 Consensus size: 1
716635 TTTGTTGTTG
* * * * * * * * *
716645 TTTTTTTGTTTGTTTGTTTTTTTTTGTTTTTTTTTGTTTTGTTGTTTTTTTTCTTCTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * *
716710 TGTTTGTTTGTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTT
716729 ATGGAGGACG
Statistics
Matches: 59, Mismatches: 24, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 59 1.00
ACGTcount: A:0.00, C:0.02, G:0.12, T:0.86
Consensus pattern (1 bp):
T
Found at i:716655 original size:8 final size:8
Alignment explanation
Indices: 716642--716726 Score: 75
Period size: 8 Copynumber: 10.2 Consensus size: 8
716632 CTTTTTGTTG
716642 TTGTTTTT
1 TTGTTTTT
716650 TTGTTTGTT
1 TTGTTT-TT
*
716659 TGTTTTTTT
1 T-TGTTTTT
716668 TTGTTTTT
1 TTGTTTTT
*
716676 TT-TTGTT
1 TTGTTTTT
716683 TTGTTGTTT
1 TTGTT-TTT
716692 TT-TTTCTT
1 TTGTTT-TT
*
716700 CTTTTTTTT
1 -TTGTTTTT
*
716709 TTGTTTGT
1 TTGTTTTT
716717 TTGTTTTT
1 TTGTTTTT
716725 TT
1 TT
716727 TTATGGAGGA
Statistics
Matches: 63, Mismatches: 7, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
7 7 0.11
8 35 0.56
9 14 0.22
10 7 0.11
ACGTcount: A:0.00, C:0.02, G:0.13, T:0.85
Consensus pattern (8 bp):
TTGTTTTT
Found at i:716678 original size:41 final size:41
Alignment explanation
Indices: 716633--716714 Score: 114
Period size: 41 Copynumber: 2.0 Consensus size: 41
716623 ATCCGAACCC
*
716633 TTTTTGTTGTTGTT-TTTTTGTTTGTT-TGTTTTTTTTTGTTTT
1 TTTTTGTT-TTGTTGTTTTT-TTTCTTCT-TTTTTTTTTGTTTT
716675 TTTTTGTTTTGTTGTTTTTTTTCTTCTTTTTTTTTTGTTT
1 TTTTTGTTTTGTTGTTTTTTTTCTTCTTTTTTTTTTGTTT
716715 GTTTGTTTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
41 23 0.62
42 14 0.38
ACGTcount: A:0.00, C:0.02, G:0.13, T:0.84
Consensus pattern (41 bp):
TTTTTGTTTTGTTGTTTTTTTTCTTCTTTTTTTTTTGTTTT
Found at i:716692 original size:18 final size:17
Alignment explanation
Indices: 716634--716728 Score: 81
Period size: 18 Copynumber: 5.4 Consensus size: 17
716624 TCCGAACCCT
716634 TTTTGTTGTTGTTTTTTTG
1 TTTT-TTGTT-TTTTTTTG
716653 TTTGTTTGTTTTTTTTTG
1 TTT-TTTGTTTTTTTTTG
716671 TTTTTT-TTTGTTTTGTTG
1 TTTTTTGTTT-TTTT-TTG
*
716689 TTTTTT-TTCTTCTTTT-
1 TTTTTTGTT-TTTTTTTG
716705 TTTTTTGTTTGTTTGTTT-
1 TTTTTTGTTT-TTT-TTTG
716723 TTTTTT
1 TTTTTT
716729 ATGGAGGACG
Statistics
Matches: 67, Mismatches: 2, Indels: 15
0.80 0.02 0.18
Matches are distributed among these distances:
16 10 0.15
17 13 0.19
18 34 0.51
19 9 0.13
20 1 0.01
ACGTcount: A:0.00, C:0.02, G:0.14, T:0.84
Consensus pattern (17 bp):
TTTTTTGTTTTTTTTTG
Found at i:730060 original size:20 final size:20
Alignment explanation
Indices: 730037--730109 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
730027 ACAATTCAAA
730037 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
730057 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
730078 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
730098 GTATCGATACAT
1 GTATCGATACAT
730110 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:730081 original size:21 final size:21
Alignment explanation
Indices: 730055--730130 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
730045 ACATGTTGCA
730055 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
730076 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
730096 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
730117 ATGTATCGATACAT
1 ATGTATCGATACAT
730131 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:730088 original size:41 final size:41
Alignment explanation
Indices: 730037--730130 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
730027 ACAATTCAAA
*
730037 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
730078 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
730119 GTATCGATACAT
1 GTATCGATACAT
730131 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:730187 original size:13 final size:13
Alignment explanation
Indices: 730169--730194 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
730159 TACAGCAAGT
730169 ATGTATCGATACA
1 ATGTATCGATACA
730182 ATGTATCGATACA
1 ATGTATCGATACA
730195 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:732443 original size:21 final size:21
Alignment explanation
Indices: 732410--732454 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
732400 TTGCAAGTTG
*
732410 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
732432 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
732452 AAA
1 AAA
732455 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:734278 original size:15 final size:15
Alignment explanation
Indices: 734258--734288 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
734248 TAAAAATGTC
*
734258 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
734273 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
734288 C
1 C
734289 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:736386 original size:13 final size:13
Alignment explanation
Indices: 736368--736405 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
736358 CATTTTTATT
736368 TGTATCGATACAA
1 TGTATCGATACAA
*
736381 TGTATCGATACAC
1 TGTATCGATACAA
736394 TGTATCGATACA
1 TGTATCGATACA
736406 GGGTGTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:738859 original size:20 final size:20
Alignment explanation
Indices: 738836--738908 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
738826 ACAATTCAAA
738836 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
738856 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
738877 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
738897 GTATCGATACAT
1 GTATCGATACAT
738909 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:738880 original size:21 final size:21
Alignment explanation
Indices: 738854--738929 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
738844 ACATGTTGCA
738854 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
738875 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
738895 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
738916 ATGTATCGATACAT
1 ATGTATCGATACAT
738930 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:738887 original size:41 final size:41
Alignment explanation
Indices: 738836--738929 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
738826 ACAATTCAAA
*
738836 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
738877 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
738918 GTATCGATACAT
1 GTATCGATACAT
738930 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:738986 original size:13 final size:13
Alignment explanation
Indices: 738968--738993 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
738958 TACAGCAAGT
738968 ATGTATCGATACA
1 ATGTATCGATACA
738981 ATGTATCGATACA
1 ATGTATCGATACA
738994 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:739858 original size:13 final size:13
Alignment explanation
Indices: 739840--739867 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
739830 ATACAAAGGT
739840 CAATGTATCGATA
1 CAATGTATCGATA
739853 CAATGTATCGATA
1 CAATGTATCGATA
739866 CA
1 CA
739868 TTTGAGTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:739930 original size:13 final size:13
Alignment explanation
Indices: 739912--739963 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
739902 AGCTTCGTAG
739912 CGATACATTGTAT
1 CGATACATTGTAT
739925 CGATACCAAACTTATGTAT
1 CGATA-C--A-TT--GTAT
739944 CGATACATTGTAT
1 CGATACATTGTAT
739957 CGATACA
1 CGATACA
739964 GTTACAGTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 16 0.48
14 1 0.03
15 2 0.06
16 2 0.06
17 2 0.06
18 1 0.03
19 9 0.27
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:740927 original size:48 final size:48
Alignment explanation
Indices: 740811--741131 Score: 331
Period size: 48 Copynumber: 6.9 Consensus size: 48
740801 ATGTTAAAGA
* * * *
740811 TGCCAATATGCTGATTCAAGGCCAACAATATTAGACTTACAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA-GAAGG
* * *
740860 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGACAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAGAAGG
* * * *
740908 TGCCAATATGCTAATTCAAGGCTAGTGATATTGGGCTT-------A--
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAGAAGG
* * * * *
740947 TGCCAATGTGCCGATTCAAGGCCAGCGACATTGGTCTT--AGAGATGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAGAAGG
* * *
740993 TGCCAATATGCTGATTCAAGACCAGTGATATTGGACTTAAAGATGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA-GAAGG
* * * *
741042 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAAACAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAGAAGG
*
741090 TGCCAATATGTTGATTCAAGGCCAGCGATATTGGACTTAAAG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
741132 GTGCCACGGA
Statistics
Matches: 222, Mismatches: 40, Indels: 21
0.78 0.14 0.07
Matches are distributed among these distances:
39 31 0.14
41 1 0.00
46 32 0.14
48 80 0.36
49 78 0.35
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (48 bp):
TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAGAAGG
Found at i:740939 original size:97 final size:95
Alignment explanation
Indices: 740712--741129 Score: 412
Period size: 97 Copynumber: 4.4 Consensus size: 95
740702 ATGCGAAGAA
* * * * * * **
740712 TGCCAATGTGCTGATTCATGGCCAGCGATATTAGATTTGAAGAAGAA-TGGCAATGTGCTGAGAC
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AAGATGAAGTGCCAATGTGCTGATTC
** *
740776 AAGGCCAATGACATTAGG-CTTAGGAATGTTA-AAGA
65 AAGGCCAGCGACATT-GGACTTA--AA-G--ACAAGG
* * *
740811 TGCCAATATGCTGATTCAAGGCCAACAATATTAGACTTACAGATGAAGGTGCCAATGTGCTGATT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA-AGATGAA-GTGCCAATGTGCTGATT
740876 CAAGGCCAGCGACATTGGACTTAAAGACAAGG
64 CAAGGCCAGCGACATTGGACTTAAAGACAAGG
* * * * *
740908 TGCCAATATGCTAATTCAAGGCTAGTGATATTGGGC-T----T--A-TGCCAATGTGCCGATTCA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGATGAAGTGCCAATGTGCTGATTCA
* * *
740965 AGGCCAGCGACATTGGTCTT--AGAGATGG
66 AGGCCAGCGACATTGGACTTAAAGACAAGG
* *
740993 TGCCAATATGCTGATTCAAGACCAGTGATATTGGACTTAAAGATGAAGATGCCAATGTGCTGATT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AAGATGAAG-TGCCAATGTGCTGATT
*
741058 CAAGGCCAGCGACATTGGACTTAAAAACAAGG
64 CAAGGCCAGCGACATTGGACTTAAAGACAAGG
*
741090 TGCCAATATGTTGATTCAAGGCCAGCGATATTGGACTTAA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAA
741130 AGGTGCCACG
Statistics
Matches: 267, Mismatches: 35, Indels: 37
0.79 0.10 0.11
Matches are distributed among these distances:
85 38 0.14
86 1 0.00
87 36 0.13
89 1 0.00
91 2 0.01
93 1 0.00
95 36 0.13
96 4 0.01
97 72 0.27
98 2 0.01
99 41 0.15
100 2 0.01
101 31 0.12
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.25
Consensus pattern (95 bp):
TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGATGAAGTGCCAATGTGCTGATTCA
AGGCCAGCGACATTGGACTTAAAGACAAGG
Found at i:741169 original size:32 final size:33
Alignment explanation
Indices: 741128--741217 Score: 128
Period size: 32 Copynumber: 2.8 Consensus size: 33
741118 TATTGGACTT
741128 AAAGGTGCCACGGAGTTGTGGACTTAAAAAG-A
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAAGAA
* *
741160 AAAGGTGCCACGGAGTTGTGGGCTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAAGAA
* * *
741193 AAAGATGCCGCGGACTTGTGGACTT
1 AAAGGTGCCACGGAGTTGTGGACTT
741218 TTGAAGGTTG
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
32 29 0.57
33 22 0.43
ACGTcount: A:0.32, C:0.14, G:0.33, T:0.20
Consensus pattern (33 bp):
AAAGGTGCCACGGAGTTGTGGACTTAAAAAGAA
Found at i:741239 original size:28 final size:28
Alignment explanation
Indices: 741205--741304 Score: 96
Period size: 28 Copynumber: 3.5 Consensus size: 28
741195 AGATGCCGCG
*
741205 GACTTGTGGACTTTTGAAGGTTGCCGCT
1 GACTTGTGGACTTTTGAAGGTTGCCACT
* * *
741233 GATTTGT-AAGC-TTTGAAAAAGGGTGCCACT
1 GACTTGTGGA-CTTTTG---AAGGTTGCCACT
*
741263 GACTTGTGGGCTTTTGAAGGTTGCCACT
1 GACTTGTGGACTTTTGAAGGTTGCCACT
*
741291 GACTTGTAGACTTT
1 GACTTGTGGACTTT
741305 GGAAAAGATG
Statistics
Matches: 56, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
27 5 0.09
28 30 0.54
30 17 0.30
31 4 0.07
ACGTcount: A:0.20, C:0.16, G:0.29, T:0.35
Consensus pattern (28 bp):
GACTTGTGGACTTTTGAAGGTTGCCACT
Found at i:742708 original size:8 final size:8
Alignment explanation
Indices: 742695--742778 Score: 75
Period size: 8 Copynumber: 10.2 Consensus size: 8
742685 CTTTTTGTTG
742695 TTGTTTTT
1 TTGTTTTT
*
742703 TTGTTTGT
1 TTGTTTTT
742711 TTG-TTTT
1 TTGTTTTT
742718 TTGTTTGTT
1 TTGTTT-TT
*
742727 TTTTTTGTT
1 TTGTTT-TT
742736 TTGTTGTTT
1 TTGTT-TTT
742745 TT-TTCTTCT
1 TTGTT-TT-T
742754 TT-TTTTT
1 TTGTTTTT
*
742761 TTGTTTGT
1 TTGTTTTT
742769 TTGTTTTT
1 TTGTTTTT
742777 TT
1 TT
742779 TTATGGAGGA
Statistics
Matches: 64, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
7 9 0.14
8 31 0.48
9 23 0.36
10 1 0.02
ACGTcount: A:0.00, C:0.02, G:0.14, T:0.83
Consensus pattern (8 bp):
TTGTTTTT
Found at i:742711 original size:4 final size:4
Alignment explanation
Indices: 742695--742774 Score: 62
Period size: 4 Copynumber: 20.5 Consensus size: 4
742685 CTTTTTGTTG
* *
742695 TTGT TTTT TTGT TTGT TTGT TT-T TTGT TTGTT TTTT TTGT TT-T GTTGT
1 TTGT TTGT TTGT TTGT TTGT TTGT TTGT TTG-T TTGT TTGT TTGT -TTGT
* *
742743 TT-T TT-T CTTCT TT-T TTTT TTGT TTGT TTGT TT
1 TTGT TTGT -TTGT TTGT TTGT TTGT TTGT TTGT TT
742775 TTTTTTATGG
Statistics
Matches: 64, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
3 11 0.17
4 48 0.75
5 5 0.08
ACGTcount: A:0.00, C:0.03, G:0.15, T:0.82
Consensus pattern (4 bp):
TTGT
Found at i:742719 original size:29 final size:28
Alignment explanation
Indices: 742686--742777 Score: 107
Period size: 29 Copynumber: 3.2 Consensus size: 28
742676 ATCCGGACCC
742686 TTTTTGTTGTTGTTTTTTTGTTTGTTTGT
1 TTTTTGTT-TTGTTTTTTTGTTTGTTTGT
742715 TTTTTG-TTTGTTTTTTTTGTTT-TGTTGTT
1 TTTTTGTTTTG-TTTTTTTGTTTGT-TTG-T
* *
742744 TTTTTCTTCTTTTTTTTTTGTTTGTTTGT
1 TTTTTGTT-TTGTTTTTTTGTTTGTTTGT
742773 TTTTT
1 TTTTT
742778 TTTATGGAGG
Statistics
Matches: 55, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
27 4 0.07
28 15 0.27
29 18 0.33
30 15 0.27
31 3 0.05
ACGTcount: A:0.00, C:0.02, G:0.15, T:0.83
Consensus pattern (28 bp):
TTTTTGTTTTGTTTTTTTGTTTGTTTGT
Found at i:742740 original size:47 final size:47
Alignment explanation
Indices: 742687--742779 Score: 136
Period size: 47 Copynumber: 2.0 Consensus size: 47
742677 TCCGGACCCT
*
742687 TTTTGTTGTTGTTTTT-TTGTTTGTTTGTTT-TTTGTTTGTTTTTTTTG
1 TTTTGTTGTT-TTTTTCTTCTTT-TTTGTTTGTTTGTTTGTTTTTTTTG
*
742734 TTTTGTTGTTTTTTTCTTCTTTTTTTTTTGTTTGTTTGTTTTTTTT
1 TTTTGTTGTTTTTTTCTTCTTTTTTGTTTGTTTGTTTGTTTTTTTT
742780 TATGGAGGAC
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
46 11 0.26
47 31 0.74
ACGTcount: A:0.00, C:0.02, G:0.15, T:0.83
Consensus pattern (47 bp):
TTTTGTTGTTTTTTTCTTCTTTTTTGTTTGTTTGTTTGTTTTTTTTG
Found at i:754348 original size:52 final size:52
Alignment explanation
Indices: 754291--754589 Score: 179
Period size: 52 Copynumber: 5.7 Consensus size: 52
754281 CAATTGTTTA
*
754291 TAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTT
1 TAATCGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTCCTT
* * * * *
754343 TAATCGGGGATACTCTAACTCCGATTTTATTTCCAAAAACACCAATTTTTC-A
1 TAATCGGGGATACTCCAACCCCGGTTTTATTTCC-AAAACACCAATTTTCCTT
* * * * * * *
754395 CAAGCGAGGATACTCCAACCTC-G--TTATTTCATCGAGGGTAA-TCCAA---CCCTGT
1 TAATCGGGGATACTCCAACCCCGGTTTTATTTC--C-A---AAACACCAATTTTCCT-T
* * * * *** *
754447 TACCTCCGAGGGGATACTCCAACCCCAGCTTTATTTCCAAAATATTGA-TTTCC-A
1 TA-AT-C--GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTCCTT
* * * *
754501 CAATCAGGGATACTCCAACCCCGGTTTTATTTTCAAAACACTAATTTTCCTT
1 TAATCGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTCCTT
*
754553 TAATCGGGGATACTCC-ACCCCGATTTTATTTCCAAAA
1 TAATCGGGGATACTCCAACCCCGGTTTTATTTCCAAAA
754590 AAACATCAAT
Statistics
Matches: 182, Mismatches: 45, Indels: 41
0.68 0.17 0.15
Matches are distributed among these distances:
49 7 0.04
50 33 0.18
51 26 0.14
52 62 0.34
53 22 0.12
54 5 0.03
56 18 0.10
57 2 0.01
59 7 0.04
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (52 bp):
TAATCGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTCCTT
Found at i:754662 original size:211 final size:211
Alignment explanation
Indices: 754292--754735 Score: 723
Period size: 211 Copynumber: 2.1 Consensus size: 211
754282 AATTGTTTAT
754292 AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACT
1 AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACT
* *
754357 CTAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAAGCGAGGATACTCCAACCTCGTTAT
66 CTAACCCCGATTTTATTTCCAAAAACACCAATTTTTCACAACCGAGGATACTCCAACCTCGTTAT
*
754422 TTCATCGAGGGTAATCCAACCCTGTTACCTCCGAGGGGATACTCCAACCCCAGCTTTATTTCCAA
131 TTCATCGAGGGTAATCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCAGCTTTATTTCCAA
754487 AATATTGATTTC-CAC
196 AATATTGATTTCTCAC
* *
754502 AATCAGGGATACTCCAACCCCGGTTTTATTTTCAAAACACTAATTTTCCTTTAATCGGGGATACT
1 AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACT
* * *
754567 C-CACCCCGATTTTATTTCCAAAAAAACATCAATTTTTCACAACCGAGGATACTCCAACCTTGTT
66 CTAACCCCGATTTTATTTCC--AAAAACACCAATTTTTCACAACCGAGGATACTCCAACCTCGTT
* * *
754631 ATTTCATCG-GGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCTCGGCTTTATTTC
129 ATTTCATCGAGGG-TAATCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCAGCTTTATTTC
*
754695 CAAAATATTGATTTCTCAT
193 CAAAATATTGATTTCTCAC
*
754714 AATTGGGGATACTCCAACCCCG
1 AATCGGGGATACTCCAACCCCG
754736 TTATTTCCGA
Statistics
Matches: 216, Mismatches: 14, Indels: 6
0.92 0.06 0.03
Matches are distributed among these distances:
209 16 0.07
210 67 0.31
211 111 0.51
212 22 0.10
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (211 bp):
AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACT
CTAACCCCGATTTTATTTCCAAAAACACCAATTTTTCACAACCGAGGATACTCCAACCTCGTTAT
TTCATCGAGGGTAATCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCAGCTTTATTTCCAA
AATATTGATTTCTCAC
Found at i:754745 original size:79 final size:79
Alignment explanation
Indices: 754638--754872 Score: 269
Period size: 79 Copynumber: 3.0 Consensus size: 79
754628 GTTATTTCAT
** *
754638 CGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCTCGGCTTTATTTCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCTCGGTTTTATTTCCAAAATAT
*
754703 TGATTTCTCATAAT
66 TGATTTCTCATAAC
* * * *
754717 TGGGGATACTCCAACCCCGTTATTTCCGAGGGGATGCTCCAATCCT-GATTTTATTTCC-TAATC
1 CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAA-CCTCGGTTTTATTTCCAAAAT-
* * *
754780 ATCGATTTTTCACAAC
64 ATTGATTTCTCATAAC
* * * *
754796 CGGGGATACTCCAGCCCCGTTATTTTCAAGGGGATACTCCAACCTC-GTTATTATCTCCAAAATA
1 CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCTCGGTT-TTATTTCCAAAATA
*
754860 TTAAATTTCTCAT
65 TT-GATTTCTCAT
754873 CGAGACACAT
Statistics
Matches: 127, Mismatches: 23, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
78 8 0.06
79 106 0.83
80 13 0.10
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.32
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCTCGGTTTTATTTCCAAAATAT
TGATTTCTCATAAC
Found at i:767269 original size:13 final size:11
Alignment explanation
Indices: 767246--767326 Score: 67
Period size: 11 Copynumber: 7.3 Consensus size: 11
767236 TTCTTTTCTT
767246 AAAAAAA-AAA
1 AAAAAAACAAA
* *
767256 ACAAAAGCAAA
1 AAAAAAACAAA
*
767267 AAAAAAGCAACA
1 AAAAAAACAA-A
767279 AAAAAAACGAACA
1 AAAAAAAC-AA-A
767292 AAAAAAAC-AA
1 AAAAAAACAAA
*
767302 AAAAAAATAAA
1 AAAAAAACAAA
* *
767313 GAAAAAAGAAA
1 AAAAAAACAAA
767324 AAA
1 AAA
767327 GAAGAATCTG
Statistics
Matches: 59, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
10 13 0.22
11 26 0.44
12 8 0.14
13 12 0.20
ACGTcount: A:0.84, C:0.09, G:0.06, T:0.01
Consensus pattern (11 bp):
AAAAAAACAAA
Found at i:767280 original size:14 final size:13
Alignment explanation
Indices: 767249--767329 Score: 67
Period size: 14 Copynumber: 5.9 Consensus size: 13
767239 TTTTCTTAAA
*
767249 AAAAAAAACAAAAGC
1 AAAAAAAA-AGAA-C
767264 AAAAAAAAAGCAAC
1 AAAAAAAAAG-AAC
*
767278 AAAAAAAACGAAC
1 AAAAAAAAAGAAC
767291 AAAAAAAACA-AA-
1 AAAAAAAA-AGAAC
*
767303 AAAAAATAAAGAAA
1 AAAAAA-AAAGAAC
767317 AAAGAAAAAAGAA
1 AAA-AAAAAAGAA
767330 GAATCTGCTT
Statistics
Matches: 57, Mismatches: 3, Indels: 13
0.78 0.04 0.18
Matches are distributed among these distances:
12 7 0.12
13 17 0.30
14 20 0.35
15 13 0.23
ACGTcount: A:0.83, C:0.09, G:0.07, T:0.01
Consensus pattern (13 bp):
AAAAAAAAAGAAC
Found at i:767332 original size:10 final size:10
Alignment explanation
Indices: 767246--767326 Score: 56
Period size: 10 Copynumber: 7.5 Consensus size: 10
767236 TTCTTTTCTT
767246 AAAAAAAA-A
1 AAAAAAAACA
* *
767255 AACAAAAGCA
1 AAAAAAAACA
767265 AAAAAAAAGCAA
1 AAAAAAAA-C-A
767277 CAAAAAAAACGAA
1 -AAAAAAAAC--A
767290 CAAAAAAAACA
1 -AAAAAAAACA
*
767301 AAAAAAAATA
1 AAAAAAAACA
*
767311 AAGAAAAAAGA
1 AA-AAAAAACA
767322 AAAAA
1 AAAAA
767327 GAAGAATCTG
Statistics
Matches: 60, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
9 6 0.10
10 21 0.35
11 11 0.18
12 2 0.03
13 20 0.33
ACGTcount: A:0.84, C:0.09, G:0.06, T:0.01
Consensus pattern (10 bp):
AAAAAAAACA
Found at i:768530 original size:61 final size:60
Alignment explanation
Indices: 768300--769071 Score: 763
Period size: 55 Copynumber: 13.3 Consensus size: 60
768290 TCTGCTTTTT
* * *
768300 AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTC
* * * * * **
768360 AGTCTTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-C
* * * *
768421 AGACCTCAAAGAGCAGGACGCCTT-TTCTTTTAAAGCCCACATAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTC
**
768480 AGTCCTCAAAGAGCAGGACGTCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACG-CCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-C
* *
768542 AGTCCTCAAAGAGCA--A-G--AT-GCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTC
**
768596 AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTC
* * * *
768656 TAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 -AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACC-TTC
* * **
768718 AGTCCCCAAAGAGCAGGA------CACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-C
*
768773 AGTCCTCAAAGAGCAGGAC-AC--CT-C-TT-AAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACC-TTC
* * * * * **
768828 AGTCCCCAAAGATCAGGA------CACCTTTCACAGCGCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-C
* *
768883 AATCCTCAAAGAGCAGGAC-AC--CT-C-TT-AAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACC-TTC
* * * *
768938 AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACC-TTC
* * * **
768999 AGTCCCCAAAGAGCAGGA------CACCTTTCAAAGCGCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-C
769054 AGTCCTCAAAGAGCAGGA
1 AGTCCTCAAAGAGCAGGA
769072 TGCACTTTAT
Statistics
Matches: 605, Mismatches: 75, Indels: 69
0.81 0.10 0.09
Matches are distributed among these distances:
52 1 0.00
53 1 0.00
54 24 0.04
55 238 0.39
56 10 0.02
57 3 0.00
58 3 0.00
59 22 0.04
60 120 0.20
61 164 0.27
62 19 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (60 bp):
AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTC
Found at i:768966 original size:281 final size:289
Alignment explanation
Indices: 768302--769071 Score: 1073
Period size: 281 Copynumber: 2.7 Consensus size: 289
768292 TGCTTTTTAG
* * * *
768302 TCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCTT
1 TCCTCAAAGAGCAGGACGAC-TCTCC-TTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCT
* * *
768366 CAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGACCTCAA
64 CAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCCCAA
* * **
768430 AGAGCAGGACGCCTTTTCTTTTAAAGCCCACATAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGC
128 AGAGCAGGACACC-TTTC----AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGC
* * *
768494 AGGACGTCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAAG
188 AGGACG-AC-TCTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCCCAAAGAGCAAG
** *
768559 ATGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAG
251 ACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAA
* *
768598 TCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCTAGTCC
1 TCCTCAAAGAGCAGGACGAC-TCTCCTTT-AAAGCCCACACAAGTTGGTGGCACCTTTC-AGTCC
768662 TCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAA
63 TCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAA
768727 AGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGAC
128 AGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGAC
* *
768792 -AC-CT-C-TT-AAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCCCAAAGATCAGGACACCT
193 GACTCTCCTTTCAAAGCCCACACAAGTTGGTGGCA-CTTTCCAGTCCCCAAAGAGCAAGACACCT
* * **
768851 TTCACAGCGCACACAAGTTGGTGGCATTTTCCAA
257 TTCAAAGCCCACACAAGTTGGTGGCACCTT-CAA
768885 TCCTCAAAGAGCAGGAC-AC-CT-C-TTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCA
1 TCCTCAAAGAGCAGGACGACTCTCCTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCA
768946 AAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGA
66 AAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGA
*
769011 GCAGGACACCTTTCAAAGCGCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGA
131 GCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGA
769072 TGCACTTTAT
Statistics
Matches: 440, Mismatches: 26, Indels: 31
0.89 0.05 0.06
Matches are distributed among these distances:
281 156 0.35
282 6 0.01
283 1 0.00
284 2 0.00
286 69 0.16
287 24 0.05
288 1 0.00
289 2 0.00
291 1 0.00
292 24 0.05
293 20 0.05
295 3 0.01
296 54 0.12
297 74 0.17
298 3 0.01
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (289 bp):
TCCTCAAAGAGCAGGACGACTCTCCTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCA
AAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGA
GCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGAC
TCTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCCCAAAGAGCAAGACACCTTTCA
AAGCCCACACAAGTTGGTGGCACCTTCAA
Found at i:768999 original size:29 final size:29
Alignment explanation
Indices: 768966--769047 Score: 75
Period size: 26 Copynumber: 2.9 Consensus size: 29
768956 TGCTTTTTCT
768966 TTTCAAAGCCCACACAAGTTGGTGGCACC
1 TTTCAAAGCCCACACAAGTTGGTGGCACC
* **
768995 TTTC--AGTCCC-CA-AAG-AGCAGGACACC
1 TTTCAAAG-CCCACACAAGTTGGTGG-CACC
*
769021 TTTCAAAGCGCACACAAGTTGGTGGCA
1 TTTCAAAGCCCACACAAGTTGGTGGCA
769048 TTTTCCAGTC
Statistics
Matches: 39, Mismatches: 7, Indels: 14
0.65 0.12 0.23
Matches are distributed among these distances:
25 3 0.08
26 11 0.28
27 6 0.15
28 7 0.18
29 9 0.23
30 3 0.08
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (29 bp):
TTTCAAAGCCCACACAAGTTGGTGGCACC
Found at i:769085 original size:116 final size:115
Alignment explanation
Indices: 768326--769079 Score: 912
Period size: 116 Copynumber: 6.5 Consensus size: 115
768316 GATGCCTTTT
* * * ** *
768326 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCTTCAAAGAGCAGGATGCTTTTTCTTTT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGATGCACTTTCCTTT
* *
768391 CAAAGCCCACACAAGTTGGTGGCATTTTCCAGACCTCAAAGAGCAGGACG
66 CAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACA
* * *
768441 CCTTTTCTTTTAAAGCCCACATAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGTC-CTT
1 CC-TTTC----AAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGATG-CACTT
* **
768505 CTCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAAGATG
60 -TCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACA
* *
768562 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGC-CTTCTCCTT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGATGCACTT-TCCTT
* *
768626 TCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCTTTTT
65 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGA--C----A
* *
768683 CTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGA--CA----CCTT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCA-CTTTCAGTCCTCAAAGAGCAGGATGCACTTTCCTT
768742 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACA
65 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACA
* *
768793 CCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGATCAGGA--CA----CCT
1 CCT-TTCAAAGCCCACACAAGTTGGTGGCA-CTTTCAGTCCTCAAAGAGCAGGATGCACTTTCCT
* * *
768851 TTCACAGCGCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGACA
64 TTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACA
** *
768903 CCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTT
1 CCT-TTCAAAGCCCACACAAGTTGGTGGCA-CTTTCAGTCCTCAAAGAGCAGGATGCACTTTCCT
* *
768967 TTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCCCAAAGAGCAGGACA
64 TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACA
* *
769019 CCTTTCAAAGCGCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCACTTT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTT-CAGTCCTCAAAGAGCAGGATGCACTTT
769080 ATTTTCCTCT
Statistics
Matches: 577, Mismatches: 37, Indels: 49
0.87 0.06 0.07
Matches are distributed among these distances:
110 153 0.27
111 2 0.00
112 1 0.00
114 1 0.00
115 64 0.11
116 197 0.34
117 3 0.01
120 52 0.09
121 83 0.14
122 21 0.04
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.25
Consensus pattern (115 bp):
CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGATGCACTTTCCTTT
CAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACA
Found at i:772354 original size:52 final size:53
Alignment explanation
Indices: 772298--772398 Score: 150
Period size: 52 Copynumber: 1.9 Consensus size: 53
772288 CAATTGTTTA
* * *
772298 TAATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAATACCAATTTTTTTT
1 TAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTTTTT
* *
772350 TAATCGGGGATACTCTAACTCCGATTTTATTTCCAAAAACACCAATTTT
1 TAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTT
772399 CACAAGCGAG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
52 30 0.70
53 13 0.30
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.38
Consensus pattern (53 bp):
TAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTTTTT
Found at i:772521 original size:50 final size:51
Alignment explanation
Indices: 772462--772580 Score: 150
Period size: 50 Copynumber: 2.3 Consensus size: 51
772452 TTACCTCCGA
* *
772462 GGGGATACTCCAACCCCAGCTTTAATTCCAAAATATTAA-TTTCCACAATC
1 GGGGATACTCCAACCCCAGCTTTAATTCCAAAACACTAATTTTCCACAATC
* * * ***
772512 GGGGATACTCCAACCCCAGTTTTATTTTCAAAACACTAATTTTTCTTTAATC
1 GGGGATACTCCAACCCCAGCTTTAATTCCAAAACACTAA-TTTTCCACAATC
772564 GGGGATACTCCAACCCC
1 GGGGATACTCCAACCCC
772581 GATTTTATTT
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
50 34 0.58
52 25 0.42
ACGTcount: A:0.30, C:0.28, G:0.12, T:0.30
Consensus pattern (51 bp):
GGGGATACTCCAACCCCAGCTTTAATTCCAAAACACTAATTTTCCACAATC
Found at i:772580 original size:52 final size:50
Alignment explanation
Indices: 772462--772596 Score: 164
Period size: 52 Copynumber: 2.7 Consensus size: 50
772452 TTACCTCCGA
* * * *
772462 GGGGATACTCCAACCCCAGCTTTAATTCCAAAATATTAATTTCCACAATC
1 GGGGATACTCCAACCCCAGTTTTATTTCCAAAACACTAATTTCCACAATC
* ***
772512 GGGGATACTCCAACCCCAGTTTTATTTTCAAAACACTAATTTTTCTTTAATC
1 GGGGATACTCCAACCCCAGTTTTATTTCCAAAACACTAA--TTTCCACAATC
772564 GGGGATACTCCAACCCC-GATTTTATTTCCAAAA
1 GGGGATACTCCAACCCCAG-TTTTATTTCCAAAA
772597 AAAATATCAA
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
50 34 0.47
51 1 0.01
52 38 0.52
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.32
Consensus pattern (50 bp):
GGGGATACTCCAACCCCAGTTTTATTTCCAAAACACTAATTTCCACAATC
Found at i:772653 original size:28 final size:28
Alignment explanation
Indices: 772621--772692 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
772611 TCACAACCGA
** **
772621 GGATACTCCAACCTCGTTATTTCATCGG
1 GGATACTCCAACCTCGTTACCTCAGAGG
* *
772649 GGATACTCCAACCCCGTTACCTCCGAGG
1 GGATACTCCAACCTCGTTACCTCAGAGG
772677 GGATACTCCAACCTCG
1 GGATACTCCAACCTCG
772693 GCTTTATTTC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.22, C:0.35, G:0.19, T:0.24
Consensus pattern (28 bp):
GGATACTCCAACCTCGTTACCTCAGAGG
Found at i:772706 original size:213 final size:210
Alignment explanation
Indices: 772299--772742 Score: 676
Period size: 213 Copynumber: 2.1 Consensus size: 210
772289 AATTGTTTAT
* * *
772299 AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAATACCAATTTTTTTTTAATCGGGGATACT
1 AATCGGGGATACTCCAACCCCAGTTTTATTTTCAAAACACCAATTTTTCTTTAATCGGGGATACT
* * *
772364 CTAACTCCGATTTTATTTCCAAAAACACCAATTTTCACAAGCGAGGATACTCAAACCTCGTTATT
66 CCAACCCCGATTTTATTTCCAAAAACACCAATTTTCACAACCGAGGATACTCAAACCTCGTTATT
*
772429 TCATCGGGGGTACTCCAACCCGATTACCTCCGAGGGGATACTCCAACCCCAGCTTTAATTCCAAA
131 TCATCGGGGATACTCCAACCCGATTACCTCCGAGGGGATACTCCAACCCCAGCTTTAATTCCAAA
772494 ATATTAATTTC-CAC
196 ATATTAATTTCTCAC
*
772508 AATCGGGGATACTCCAACCCCAGTTTTATTTTCAAAACACTAATTTTTCTTTAATCGGGGATACT
1 AATCGGGGATACTCCAACCCCAGTTTTATTTTCAAAACACCAATTTTTCTTTAATCGGGGATACT
* * *
772573 CCAACCCCGATTTTATTTCCAAAAAAAATATCAATTTTTCACAACCGAGGATACTCCAACCTCGT
66 CCAACCCCGATTTTATTTCC---AAAAACACCAA-TTTTCACAACCGAGGATACTCAAACCTCGT
* * *
772638 TATTTCATCGGGGATACTCCAACCCCG-TTACCTCCGAGGGGATACTCCAACCTCGGCTTTATTT
127 TATTTCATCGGGGATACTCCAA-CCCGATTACCTCCGAGGGGATACTCCAACCCCAGCTTTAATT
* *
772702 CCAAAATATTGATTTCTCAT
191 CCAAAATATTAATTTCTCAC
*
772722 AATTGGGGATACTCCAACCCC
1 AATCGGGGATACTCCAACCCC
772743 GTTATTTCCA
Statistics
Matches: 212, Mismatches: 17, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
209 79 0.37
212 9 0.04
213 98 0.46
214 26 0.12
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (210 bp):
AATCGGGGATACTCCAACCCCAGTTTTATTTTCAAAACACCAATTTTTCTTTAATCGGGGATACT
CCAACCCCGATTTTATTTCCAAAAACACCAATTTTCACAACCGAGGATACTCAAACCTCGTTATT
TCATCGGGGATACTCCAACCCGATTACCTCCGAGGGGATACTCCAACCCCAGCTTTAATTCCAAA
ATATTAATTTCTCAC
Found at i:772735 original size:107 final size:106
Alignment explanation
Indices: 772355--772750 Score: 301
Period size: 107 Copynumber: 3.7 Consensus size: 106
772345 TTTTTTAATC
* * ** * ** * * *
772355 GGGGATACTCTAACTCCGATTTTATTTCCAAAAACACCAATTT-TCACAAGCGAGGATACTCAAA
1 GGGGATACTCCAACCCCGGCTTTATTTCC-AAAATATTAATTTCTCACAATCGGGGATACTCCAA
* *
772419 CCTCGTTATTTCATCGGGGGTACTCCAACCCGATTACCTCCGA
65 CCCCGTTATTTCATCGGGGATACTCCAACCCG-TTACCTCCGA
* *
772462 GGGGATACTCCAACCCCAGCTTTAATTCCAAAATATTAATTTC-CACAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGCTTTATTTCCAAAATATTAATTTCTCACAATCGGGGATACTCCAAC
* * * * ** * *
772526 CCCAGTTTTATTT--TC---AAAACACTAATTTTTCTTTA-AT-C--
66 CCC-G--TTATTTCATCGGGGATACTCCAA---CCCGTTACCTCCGA
** * * * *
772564 GGGGATACTCCAACCCCGATTTTATTTCCAAAAAAAATATCAATTTTTCACAACCGAGGATACTC
1 GGGGATACTCCAACCCCGGCTTTATTTCC----AAAATATTAATTTCTCACAATCGGGGATACTC
*
772629 CAACCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACCTCCGA
62 CAACCCCGTTATTTCATCGGGGATACTCCAA-CCCGTTACCTCCGA
* * * *
772675 GGGGATACTCCAACCTCGGCTTTATTTCCAAAATATTGATTTCTCATAATTGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGCTTTATTTCCAAAATATTAATTTCTCACAATCGGGGATACTCCAAC
772740 CCCGTTATTTC
66 CCCGTTATTTC
772751 CAAGGGGATG
Statistics
Matches: 217, Mismatches: 51, Indels: 42
0.70 0.16 0.14
Matches are distributed among these distances:
102 25 0.12
104 12 0.06
105 1 0.00
106 48 0.22
107 91 0.42
108 1 0.00
109 13 0.06
111 26 0.12
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (106 bp):
GGGGATACTCCAACCCCGGCTTTATTTCCAAAATATTAATTTCTCACAATCGGGGATACTCCAAC
CCCGTTATTTCATCGGGGATACTCCAACCCGTTACCTCCGA
Found at i:772746 original size:79 final size:78
Alignment explanation
Indices: 772646--772880 Score: 247
Period size: 79 Copynumber: 3.0 Consensus size: 78
772636 GTTATTTCAT
** * *
772646 CGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCTCGGCTTTATTTCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACC-CGGTTTTATTTCCAAAATAT
*
772711 TGATTTCTCATAAT
65 TGATTTCTCATAAC
* * * * *
772725 TGGGGATACTCCAACCCCGTTATTTCCAAGGGGATGCTCCAATCCCGATTTTATTTTC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAA-CCCGGTTTTATTTCCAAAAT-A
* * *
772789 TCGATTTTTCACAAC
64 TTGATTTCTCATAAC
* * * * *
772804 CGGGGATACTCCAGCCCCGTTATTTTCAAGGGGATACTCTAACCCCGTTATTATCTCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCCGGTT-TTATTTCCAAAATAT
*
772869 TAAATTTCTCAT
65 T-GATTTCTCAT
772881 CGAGACACAT
Statistics
Matches: 124, Mismatches: 27, Indels: 9
0.77 0.17 0.06
Matches are distributed among these distances:
78 8 0.06
79 104 0.84
80 12 0.10
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.32
Consensus pattern (78 bp):
CGGGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCCGGTTTTATTTCCAAAATATT
GATTTCTCATAAC
Found at i:776850 original size:13 final size:13
Alignment explanation
Indices: 776832--776858 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
776822 TACATTTTAA
776832 AATGTATCGATAC
1 AATGTATCGATAC
776845 AATGTATCGATAC
1 AATGTATCGATAC
776858 A
1 A
776859 TTTGAGTAAT
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:776855 original size:33 final size:34
Alignment explanation
Indices: 776813--776879 Score: 109
Period size: 33 Copynumber: 2.0 Consensus size: 34
776803 ATTTGCCTGC
*
776813 ATGTATCGATACATTTTA-AAATGTATCGATACA
1 ATGTATCGATACATTTGAGAAATGTATCGATACA
*
776846 ATGTATCGATACATTTGAGTAATGTATCGATACA
1 ATGTATCGATACATTTGAGAAATGTATCGATACA
776880 TTTTTTGGCA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 17 0.55
34 14 0.45
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (34 bp):
ATGTATCGATACATTTGAGAAATGTATCGATACA
Found at i:776936 original size:33 final size:33
Alignment explanation
Indices: 776899--776965 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
776889 AGTAGCTTAA
776899 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* * ***
776932 ATTGTATCTATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
776965 A
1 A
776966 AATCGTTGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.36
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:779465 original size:21 final size:20
Alignment explanation
Indices: 779413--779466 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
779403 CATTTGAGAC
* *
779413 ATGTATCGATACTTTCACTT
1 ATGTATCGATACATTCACTA
*
779433 ATGTATCAATACATTCACTA
1 ATGTATCGATACATTCACTA
*
779453 ACTGTATTGATACA
1 A-TGTATCGATACA
779467 AATTGTAGAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 18 0.64
21 10 0.36
ACGTcount: A:0.33, C:0.19, G:0.09, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTCACTA
Found at i:782239 original size:34 final size:34
Alignment explanation
Indices: 782193--782377 Score: 248
Period size: 34 Copynumber: 5.5 Consensus size: 34
782183 GTAAAAACCA
*
782193 CCATTTAATCAACAATGGCAACCTACCAAATCTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* *
782227 CCATTTAGTCAACAATGGTAAACC-ACCAAATCAC
1 CCATTTAATCAACAATGGT-AACCTACCAAATCTC
* *
782261 CCATTTAATCAATAATGGTAAGCTACCAAATCTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* * *
782295 CTATTTAATCAACAATGGTAAGCTACCAAATTTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* * *
782329 CCATTTAGTCAACAATGGTAAACTACCAAATC-A
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
782362 CCATTTAATCAACAAT
1 CCATTTAATCAACAAT
782378 TCTCCCACTT
Statistics
Matches: 133, Mismatches: 16, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
33 18 0.14
34 111 0.83
35 4 0.03
ACGTcount: A:0.40, C:0.26, G:0.08, T:0.26
Consensus pattern (34 bp):
CCATTTAATCAACAATGGTAACCTACCAAATCTC
Found at i:786470 original size:19 final size:19
Alignment explanation
Indices: 786443--786504 Score: 65
Period size: 19 Copynumber: 3.2 Consensus size: 19
786433 TCACGTGTAC
*
786443 AGTAACCGTATACTTGAAT
1 AGTACCCGTATACTTGAAT
*
786462 AGTACCCGTATACGTGAAT
1 AGTACCCGTATACTTGAAT
786481 A-TACCTTAC-TATACTTGAAT
1 AGTACC---CGTATACTTGAAT
786501 AGTA
1 AGTA
786505 ACACCAATCG
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
18 4 0.11
19 18 0.50
20 11 0.31
21 3 0.08
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (19 bp):
AGTACCCGTATACTTGAAT
Found at i:787660 original size:2 final size:2
Alignment explanation
Indices: 787653--787690 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
787643 AAGGATCATC
787653 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
787691 TACTTTCGCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:790365 original size:32 final size:31
Alignment explanation
Indices: 790313--790377 Score: 87
Period size: 32 Copynumber: 2.1 Consensus size: 31
790303 GAAGTTAATT
790313 TTATTTTTTAAAAAATAATATTTAAAATAAA
1 TTATTTTTTAAAAAATAATATTTAAAATAAA
* *
790344 TTATTTTTTAATTAAAA-AATATTTATATTAAA
1 TTATTTTTTAA--AAAATAATATTTAAAATAAA
790376 TT
1 TT
790378 TTTAATTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
31 11 0.37
32 15 0.50
33 4 0.13
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (31 bp):
TTATTTTTTAAAAAATAATATTTAAAATAAA
Found at i:800257 original size:52 final size:52
Alignment explanation
Indices: 800177--800296 Score: 213
Period size: 52 Copynumber: 2.3 Consensus size: 52
800167 AAAAGTTACT
* *
800177 TGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAGATTTGCC
1 TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCC
*
800229 TGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCC
1 TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCC
800281 TGCATGTATCGATACA
1 TGCATGTATCGATACA
800297 AAGATCGGTG
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.35
Consensus pattern (52 bp):
TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCC
Done.