Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008283.1 Hibiscus syriacus cultivar Beakdansim tig00110945_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2862730
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 14
Found at i:998268 original size:23 final size:22
Alignment explanation
Indices: 998240--998325 Score: 86
Period size: 23 Copynumber: 3.9 Consensus size: 22
998230 GTGATATAAC
*
998240 CAAGGGGGTATCGATTCCCCTA
1 CAAGGGGGTATCGATTCCCCTT
* *
998262 C-AGAGGGAATC-ACTTCCCCTT
1 CAAGGGGGTATCGA-TTCCCCTT
* *
998283 CAAAGGGGGGATCGGTTCCCCTT
1 C-AAGGGGGTATCGATTCCCCTT
998306 CAAGGGGGGTATCGATTCCC
1 CAA-GGGGGTATCGATTCCC
998326 TATGCACTAA
Statistics
Matches: 51, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
20 1 0.02
21 16 0.31
22 3 0.06
23 31 0.61
ACGTcount: A:0.21, C:0.28, G:0.29, T:0.22
Consensus pattern (22 bp):
CAAGGGGGTATCGATTCCCCTT
Found at i:1005847 original size:83 final size:83
Alignment explanation
Indices: 1005684--1005849 Score: 244
Period size: 83 Copynumber: 2.0 Consensus size: 83
1005674 GTGTATATCT
* * *
1005684 GTTTAATATTTTAAATTTAAAAGATATTATTATCTGTTTAAATTTAGATATTAAAATATATCTGA
1 GTTTAATATTTTAAATTTAAAAGATATTATTATCTATTTAAATTTAGATATTAAAAGAGATCTGA
* * *
1005749 TTGGAGTAAATCTCTCAA
66 TTGAAATAAAACTCTCAA
* *
1005767 GTTTAATATTTTAAATTTAAAAGATATTATTATTTATTTAAATTTAGATATTAAAAGAGAT-TTA
1 GTTTAATATTTTAAATTTAAAAGATATTATTATCTATTTAAATTTAGATATTAAAAGAGATCTGA
1005831 GTTGAAATAAAACTCTCAA
66 -TTGAAATAAAACTCTCAA
1005850 AATTCCCCTA
Statistics
Matches: 74, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
82 2 0.03
83 72 0.97
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.44
Consensus pattern (83 bp):
GTTTAATATTTTAAATTTAAAAGATATTATTATCTATTTAAATTTAGATATTAAAAGAGATCTGA
TTGAAATAAAACTCTCAA
Found at i:1013849 original size:24 final size:24
Alignment explanation
Indices: 1013817--1013879 Score: 83
Period size: 24 Copynumber: 2.7 Consensus size: 24
1013807 CAGTGAAAAT
*
1013817 TGCCGCGTAGAATTTGCACCGAAG
1 TGCCACGTAGAATTTGCACCGAAG
* *
1013841 TGCCACGTAAAATATGCACCGAAG
1 TGCCACGTAGAATTTGCACCGAAG
*
1013865 TGCCACATAG-ATTTG
1 TGCCACGTAGAATTTG
1013880 TCCCGAATGG
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 4 0.12
24 29 0.88
ACGTcount: A:0.30, C:0.24, G:0.24, T:0.22
Consensus pattern (24 bp):
TGCCACGTAGAATTTGCACCGAAG
Found at i:1013896 original size:23 final size:23
Alignment explanation
Indices: 1013859--1013945 Score: 97
Period size: 23 Copynumber: 3.8 Consensus size: 23
1013849 AAAATATGCA
*
1013859 CCGAAGTG-CCACATAGATTTGTC
1 CCGAAG-GACCACATAGAATTGTC
*
1013882 CCGAATGG-CCGCATAGAATTGTC
1 CCGAA-GGACCACATAGAATTGTC
*
1013905 CTGAAGGACCACATAGAATTGTC
1 CCGAAGGACCACATAGAATTGTC
* *
1013928 CTGAAGGACCACGTAGAA
1 CCGAAGGACCACATAGAA
1013946 CCCTCGACTC
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
22 2 0.04
23 54 0.95
24 1 0.02
ACGTcount: A:0.31, C:0.24, G:0.24, T:0.21
Consensus pattern (23 bp):
CCGAAGGACCACATAGAATTGTC
Found at i:1016850 original size:21 final size:21
Alignment explanation
Indices: 1016824--1016871 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
1016814 ATTGTTTATT
1016824 ATTATTATTATAGTAATAATA
1 ATTATTATTATAGTAATAATA
* *
1016845 ATTATTATTTTATTAATAATA
1 ATTATTATTATAGTAATAATA
*
1016866 TTTATT
1 ATTATT
1016872 TACATTTTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
ATTATTATTATAGTAATAATA
Found at i:1016861 original size:18 final size:18
Alignment explanation
Indices: 1016818--1016864 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 18
1016808 GTGTTAATTG
*
1016818 TTTATT-ATTATTATTAT
1 TTTATTAATAATTATTAT
** *
1016835 AGTAATAATAATTATTAT
1 TTTATTAATAATTATTAT
1016853 TTTATTAATAAT
1 TTTATTAATAAT
1016865 ATTTATTTAC
Statistics
Matches: 22, Mismatches: 7, Indels: 1
0.73 0.23 0.03
Matches are distributed among these distances:
17 3 0.14
18 19 0.86
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (18 bp):
TTTATTAATAATTATTAT
Found at i:1034155 original size:27 final size:29
Alignment explanation
Indices: 1034099--1034168 Score: 117
Period size: 27 Copynumber: 2.4 Consensus size: 29
1034089 TATTTTAACC
1034099 ATTATATTAAAGTTGTGTGGTTGTAAGAGT
1 ATTATATTAAAG-TGTGTGGTTGTAAGAGT
1034129 ATTATATTAAAGTG-G-GGTTGTAAGAGT
1 ATTATATTAAAGTGTGTGGTTGTAAGAGT
1034156 ATTATATTAAAGT
1 ATTATATTAAAGT
1034169 ATATAAATAT
Statistics
Matches: 40, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
27 25 0.62
28 1 0.03
29 2 0.05
30 12 0.30
ACGTcount: A:0.34, C:0.00, G:0.24, T:0.41
Consensus pattern (29 bp):
ATTATATTAAAGTGTGTGGTTGTAAGAGT
Found at i:1034442 original size:13 final size:14
Alignment explanation
Indices: 1034424--1034455 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
1034414 CTATTTATAA
1034424 AAAATAATATT-TT
1 AAAATAATATTATT
1034437 AAAAT-ATATTATT
1 AAAATAATATTATT
1034450 AAAATA
1 AAAATA
1034456 CAATATACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AAAATAATATTATT
Found at i:1035172 original size:56 final size:56
Alignment explanation
Indices: 1035103--1035216 Score: 201
Period size: 56 Copynumber: 2.0 Consensus size: 56
1035093 TAATTTCTTC
*
1035103 TTGTAAAAACAAATATGTAACCACCATCATGGTAGATATCACCATCCTCTACCTCT
1 TTGTAAAAACAAATATGTAACCACCATCATGGTAGATATCACCATCCTCTACCCCT
* *
1035159 TTGTAAAAGCAAATCTGTAACCACCATCATGGTAGATATCACCATCCTCTACCCCT
1 TTGTAAAAACAAATATGTAACCACCATCATGGTAGATATCACCATCCTCTACCCCT
1035215 TT
1 TT
1035217 CATTGCCCTC
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.33, C:0.28, G:0.10, T:0.29
Consensus pattern (56 bp):
TTGTAAAAACAAATATGTAACCACCATCATGGTAGATATCACCATCCTCTACCCCT
Found at i:1036205 original size:32 final size:32
Alignment explanation
Indices: 1036144--1036254 Score: 192
Period size: 32 Copynumber: 3.6 Consensus size: 32
1036134 ACCTTCAACA
*
1036144 GACTGCATGGCGACC--TA-CTTCTTCGCCCC
1 GACTGCATGGCGACCAATACCTGCTTCGCCCC
1036173 GACTGCATGGCGACCAATACCTGCTTCGCCCC
1 GACTGCATGGCGACCAATACCTGCTTCGCCCC
1036205 GACTGCATGGCGACCAATACCTGCTTCGCCCC
1 GACTGCATGGCGACCAATACCTGCTTCGCCCC
1036237 GACTGCATGGCGACCAAT
1 GACTGCATGGCGACCAAT
1036255 CTCACCCCTG
Statistics
Matches: 78, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
29 15 0.19
31 2 0.03
32 61 0.78
ACGTcount: A:0.19, C:0.39, G:0.23, T:0.20
Consensus pattern (32 bp):
GACTGCATGGCGACCAATACCTGCTTCGCCCC
Found at i:1038303 original size:15 final size:16
Alignment explanation
Indices: 1038277--1038309 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
1038267 ATATTTAGCT
*
1038277 GGGCGAGCGGATGTGG
1 GGGCGAGCGGATGCGG
1038293 GGGCG-GCGGATGCGG
1 GGGCGAGCGGATGCGG
1038308 GG
1 GG
1038310 CGGATGCAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.09, C:0.15, G:0.67, T:0.09
Consensus pattern (16 bp):
GGGCGAGCGGATGCGG
Found at i:1049526 original size:44 final size:43
Alignment explanation
Indices: 1049440--1049533 Score: 102
Period size: 44 Copynumber: 2.1 Consensus size: 43
1049430 CTTGTGCACT
* *
1049440 GATGCACATTCAAGGCGTGCATCGGTGCACTTTCATGGTGTATC
1 GATGCACATTCAAGGCGTGCATCGATGCACTTTAAT-GTGTATC
* *
1049484 GATGTACATTCAAAGG-GATGCATCGATGCACTGTTAAT-TGTATT
1 GATGCACATTC-AAGGCG-TGCATCGATGCACT-TTAATGTGTATC
1049528 GATGCA
1 GATGCA
1049534 TGAAGCACAA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
44 21 0.50
45 17 0.40
46 4 0.10
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31
Consensus pattern (43 bp):
GATGCACATTCAAGGCGTGCATCGATGCACTTTAATGTGTATC
Found at i:1054565 original size:64 final size:64
Alignment explanation
Indices: 1054496--1054675 Score: 201
Period size: 65 Copynumber: 2.8 Consensus size: 64
1054486 TTGGACCCTT
*
1054496 AGTGCATCGGTGCACTAAGAGTGCATCGATGCATGAAATGCATTCGATGTTTT-A-AAATAGC-C
1 AGTGCATCGATGCACT-AGAGTGCATCGATGCATGAAATGCATTCGATGTTTTCATAAA-A-CTC
1054558 AG
63 AG
*
1054560 AGTGCATCGATGCATGGCT-G-GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAACTC
1 AGTGCATCGATGCA---CTAGAGTGCATCGATGCATGAAATGCATTCGATGTTTTCATAAAACTC
*
1054623 TG
63 AG
* *
1054625 AGTGCATTGATGCA-TAGTATGTGCATCGATGCATGAAATGCAATCGATGTT
1 AGTGCATCGATGCACTAG-A-GTGCATCGATGCATGAAATGCATTCGATGTT
1054676 CAATTTATTC
Statistics
Matches: 100, Mismatches: 6, Indels: 19
0.80 0.05 0.15
Matches are distributed among these distances:
61 1 0.01
62 1 0.01
64 46 0.46
65 47 0.47
66 3 0.03
67 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.29
Consensus pattern (64 bp):
AGTGCATCGATGCACTAGAGTGCATCGATGCATGAAATGCATTCGATGTTTTCATAAAACTCAG
Found at i:1054657 original size:65 final size:64
Alignment explanation
Indices: 1054516--1054675 Score: 209
Period size: 65 Copynumber: 2.5 Consensus size: 64
1054506 TGCACTAAGA
*
1054516 GTGCATCGATGCATGAAATGCATTCGATGTTTTAAAATAGCCAGAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTAAAATAGCCAGAGTGCATCGATGCATAGCTG
* * *
1054580 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-A-CTCTGAGTGCATTGATGCATAG-
1 GTGCATCGATGCATGAAATGCATTCGATGTTTT-A-AAATAGC-CAGAGTGCATCGATGCATAGC
*
1054642 TAT
63 T-G
*
1054645 GTGCATCGATGCATGAAATGCAATCGATGTT
1 GTGCATCGATGCATGAAATGCATTCGATGTT
1054676 CAATTTATTC
Statistics
Matches: 85, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
64 34 0.40
65 48 0.56
66 3 0.04
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.31
Consensus pattern (64 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTTAAAATAGCCAGAGTGCATCGATGCATAGCTG
Found at i:1054714 original size:65 final size:64
Alignment explanation
Indices: 1054516--1054716 Score: 198
Period size: 65 Copynumber: 3.1 Consensus size: 64
1054506 TGCACTAAGA
* * * *
1054516 GTGCATCGATGCATGAAATGCATTCGATGTTTTAAAATAGCCA-GAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCATGAAATGCATTCGATG-TTTCAATTAACCATGAGTGCATCGATGCATGGTTG
* * * *
1054580 GTGCATCGATGCATCAAATGCATTCGATGTTTTC-ATAAAACTC-TGAGTGCATTGATGCATAGT
1 GTGCATCGATGCATGAAATGCATTCGATG-TTTCAAT-TAAC-CATGAGTGCATCGATGCATGGT
1054643 AT-
63 -TG
* *
1054645 GTGCATCGATGCATGAAATGCAATCGATG-TTCAATTTATTCCATG-GTGCATCGATGCATGGAT
1 GTGCATCGATGCATGAAATGCATTCGATGTTTCAA-TTA-ACCATGAGTGCATCGATGCATGG-T
1054708 TG
63 TG
1054710 GTGCATC
1 GTGCATC
1054717 ACTTTGAAAA
Statistics
Matches: 113, Mismatches: 14, Indels: 19
0.77 0.10 0.13
Matches are distributed among these distances:
63 4 0.04
64 52 0.46
65 56 0.50
66 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.31
Consensus pattern (64 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTCAATTAACCATGAGTGCATCGATGCATGGTTG
Found at i:1056004 original size:21 final size:21
Alignment explanation
Indices: 1055979--1056020 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
1055969 GCCAGAAGGG
1055979 GGGAATC-AGTACCCCTTCATA
1 GGGAATCGA-TACCCCTTCATA
1056000 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
1056021 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:1056250 original size:29 final size:31
Alignment explanation
Indices: 1056218--1056277 Score: 88
Period size: 29 Copynumber: 2.0 Consensus size: 31
1056208 AAATTTTGAA
* *
1056218 TAAATTCAATT-AAGTCCAAATA-CATTTTG
1 TAAATTCAATTCAAGTCAAAAAACCATTTTG
1056247 TAAATTCAATTCAAGTCAAAAAACCATTTTG
1 TAAATTCAATTCAAGTCAAAAAACCATTTTG
1056278 CCTTAAATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 11 0.41
30 9 0.33
31 7 0.26
ACGTcount: A:0.43, C:0.15, G:0.07, T:0.35
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCAAAAAACCATTTTG
Found at i:1061592 original size:16 final size:16
Alignment explanation
Indices: 1061571--1061631 Score: 113
Period size: 16 Copynumber: 3.8 Consensus size: 16
1061561 TAATAAATAA
1061571 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
1061587 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
1061603 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
1061619 ACGAACATAAACG
1 ACGAACATAAACG
1061632 TTGGAGACAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 43 1.00
ACGTcount: A:0.56, C:0.23, G:0.13, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:1062396 original size:24 final size:24
Alignment explanation
Indices: 1062355--1062400 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
1062345 AGATTTGGTT
*
1062355 AAACATAAATGAATGAACATAAAC
1 AAACATAAATGAACGAACATAAAC
1062379 AAACAT-AATCGAACGAACATAA
1 AAACATAAAT-GAACGAACATAA
1062401 CCGAACTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.61, C:0.15, G:0.09, T:0.15
Consensus pattern (24 bp):
AAACATAAATGAACGAACATAAAC
Found at i:1062697 original size:10 final size:10
Alignment explanation
Indices: 1062684--1062731 Score: 51
Period size: 10 Copynumber: 4.4 Consensus size: 10
1062674 ATAAATGAAT
1062684 GAACATAAAC
1 GAACATAAAC
1062694 GAACATAATCGAAC
1 GAACAT-A---AAC
1062708 GAACATAAAC
1 GAACATAAAC
*
1062718 GAACATAACC
1 GAACATAAAC
1062728 GAAC
1 GAAC
1062732 GTTTACGAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
10 22 0.67
11 1 0.03
13 1 0.03
14 9 0.27
ACGTcount: A:0.54, C:0.23, G:0.12, T:0.10
Consensus pattern (10 bp):
GAACATAAAC
Found at i:1062708 original size:14 final size:14
Alignment explanation
Indices: 1062691--1062721 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
1062681 AATGAACATA
*
1062691 AACGAACATAATCG
1 AACGAACATAAACG
1062705 AACGAACATAAACG
1 AACGAACATAAACG
1062719 AAC
1 AAC
1062722 ATAACCGAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.55, C:0.23, G:0.13, T:0.10
Consensus pattern (14 bp):
AACGAACATAAACG
Found at i:1062711 original size:24 final size:24
Alignment explanation
Indices: 1062670--1062732 Score: 92
Period size: 24 Copynumber: 2.6 Consensus size: 24
1062660 AGATTTGGTT
*
1062670 GAACATAAAT-GAATGAACATAAAC
1 GAACAT-AATCGAACGAACATAAAC
1062694 GAACATAATCGAACGAACATAAAC
1 GAACATAATCGAACGAACATAAAC
*
1062718 GAACATAACCGAACG
1 GAACATAATCGAACG
1062733 TTTACGAACG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
23 3 0.08
24 33 0.92
ACGTcount: A:0.54, C:0.19, G:0.14, T:0.13
Consensus pattern (24 bp):
GAACATAATCGAACGAACATAAAC
Found at i:1067102 original size:22 final size:21
Alignment explanation
Indices: 1067064--1067104 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
1067054 GTAAAGTACA
1067064 TCAAAGGTTATTGAATTATGC
1 TCAAAGGTTATTGAATTATGC
* *
1067085 TCAAATGGTTTTTTAATTAT
1 TCAAA-GGTTATTGAATTAT
1067105 TAAATTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.46
Consensus pattern (21 bp):
TCAAAGGTTATTGAATTATGC
Found at i:1068955 original size:51 final size:50
Alignment explanation
Indices: 1068878--1068978 Score: 175
Period size: 51 Copynumber: 2.0 Consensus size: 50
1068868 AAAGTATGTG
*
1068878 ATCTAGATTAATCACTAATAAATCAGATATCGATAACAATAGATATTTTT
1 ATCTAGATTAATCACTAATAAATCAGATATCGATAACAATAGAGATTTTT
*
1068928 ATCTAGATTAATCGACTAATGAATCAGATATCGATAACAATAGAGATTTTT
1 ATCTAGATTAATC-ACTAATAAATCAGATATCGATAACAATAGAGATTTTT
1068979 GTTTTCTACT
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
50 13 0.27
51 35 0.73
ACGTcount: A:0.43, C:0.12, G:0.11, T:0.35
Consensus pattern (50 bp):
ATCTAGATTAATCACTAATAAATCAGATATCGATAACAATAGAGATTTTT
Found at i:1072847 original size:11 final size:11
Alignment explanation
Indices: 1072827--1072877 Score: 54
Period size: 11 Copynumber: 4.6 Consensus size: 11
1072817 CAAAGAAAGT
1072827 AAAATGAATAAA
1 AAAAT-AATAAA
1072839 AAAATAAT-AA
1 AAAATAATAAA
1072849 AAAA-AATAAA
1 AAAATAATAAA
1072859 AATAA-AATAAA
1 AA-AATAATAAA
1072870 TAAAATAA
1 -AAAATAA
1072878 AAGAAATAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
9 3 0.09
10 10 0.29
11 13 0.37
12 9 0.26
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (11 bp):
AAAATAATAAA
Found at i:1072849 original size:20 final size:20
Alignment explanation
Indices: 1072833--1072879 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
1072823 AAGTAAAATG
1072833 AATAAAAA-AATAATAAAAAA
1 AATAAAAATAA-AATAAAAAA
*
1072853 AATAAAAATAAAATAAATAA
1 AATAAAAATAAAATAAAAAA
1072873 AATAAAA
1 AATAAAA
1072880 GAAATAAACA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.92
21 2 0.08
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (20 bp):
AATAAAAATAAAATAAAAAA
Found at i:1072861 original size:18 final size:18
Alignment explanation
Indices: 1072838--1072894 Score: 62
Period size: 20 Copynumber: 3.0 Consensus size: 18
1072828 AAATGAATAA
1072838 AAAAATAATAAAAAAAAT
1 AAAAATAATAAAAAAAAT
*
1072856 AAAAATAAAATAAATAAAAT
1 AAAAAT--AATAAAAAAAAT
1072876 AAAAGA-AATAAACAAAAAT
1 AAAA-ATAATAAA-AAAAAT
1072895 GTTGGATAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
18 12 0.36
19 5 0.15
20 15 0.45
21 1 0.03
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.16
Consensus pattern (18 bp):
AAAAATAATAAAAAAAAT
Found at i:1072865 original size:14 final size:14
Alignment explanation
Indices: 1072818--1072887 Score: 63
Period size: 14 Copynumber: 4.8 Consensus size: 14
1072808 AAATTAAAAC
1072818 AAAGAAAGTAAAATGA
1 AAAGAAA-TAAAAT-A
1072834 ATAA-AAA-AATAATA
1 A-AAGAAATAA-AATA
*
1072848 AAAAAAATAAAAATA
1 AAAGAAAT-AAAATA
*
1072863 AAATAAATAAAATA
1 AAAGAAATAAAATA
1072877 AAAGAAATAAA
1 AAAGAAATAAA
1072888 CAAAAATGTT
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
13 2 0.04
14 23 0.49
15 14 0.30
16 6 0.13
17 2 0.04
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.16
Consensus pattern (14 bp):
AAAGAAATAAAATA
Found at i:1072873 original size:9 final size:9
Alignment explanation
Indices: 1072826--1072892 Score: 52
Period size: 9 Copynumber: 7.6 Consensus size: 9
1072816 ACAAAGAAAG
*
1072826 TAAAATGAA
1 TAAAATAAA
1072835 TAAAA-AAA
1 TAAAATAAA
1072843 TAATAA-AAA
1 TAA-AATAAA
*
1072852 -AAATAAAAA
1 TAAA-ATAAA
1072861 TAAAATAAA
1 TAAAATAAA
1072870 TAAAATAAA
1 TAAAATAAA
1072879 -AGAAATAAA
1 TA-AAATAAA
*
1072888 CAAAA
1 TAAAA
1072893 ATGTTGGATA
Statistics
Matches: 50, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
7 1 0.02
8 9 0.18
9 36 0.72
10 4 0.08
ACGTcount: A:0.79, C:0.01, G:0.03, T:0.16
Consensus pattern (9 bp):
TAAAATAAA
Found at i:1072893 original size:14 final size:13
Alignment explanation
Indices: 1072833--1072887 Score: 67
Period size: 14 Copynumber: 4.1 Consensus size: 13
1072823 AAGTAAAATG
1072833 AATAAAAAAATAA
1 AATAAAAAAATAA
*
1072846 TA-AAAAAAATAAA
1 AATAAAAAAAT-AA
1072859 AATAAAATAAATAA
1 AATAAAA-AAATAA
1072873 AATAAAAGAAATAA
1 AATAAAA-AAATAA
1072887 A
1 A
1072888 CAAAAATGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
12 8 0.22
13 4 0.11
14 20 0.56
15 4 0.11
ACGTcount: A:0.82, C:0.00, G:0.02, T:0.16
Consensus pattern (13 bp):
AATAAAAAAATAA
Found at i:1074128 original size:35 final size:34
Alignment explanation
Indices: 1074083--1074251 Score: 114
Period size: 37 Copynumber: 4.8 Consensus size: 34
1074073 GAAAAACCAT
1074083 AAAACATATATTATATTTTTTAAAAACCATTTTAAA
1 AAAACATATATTATATTTTTTAAAAA--ATTTTAAA
* * *
1074119 AAAACTATATATTATATGTTTT--CAAATATTAAA
1 AAAAC-ATATATTATATTTTTTAAAAAATTTTAAA
* *
1074152 AAAACTATATATTATATGTTTTCAAAAATATGTTT-TA
1 AAAAC-ATATATTATAT-TTTTTAAAAA-AT-TTTAAA
* **
1074189 AAAACTATATTATATATATGTTTTT-TAAAATGTTT-TC
1 AAAAC-ATA-TAT-TATAT-TTTTTAAAAAAT-TTTAAA
*
1074226 AAACCATATATTATATTTTTTAAAAA
1 AAAACATATATTATATTTTTTAAAAA
1074252 TGTTTTCAAA
Statistics
Matches: 111, Mismatches: 13, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
33 29 0.26
34 11 0.10
35 5 0.05
36 10 0.09
37 38 0.34
38 8 0.07
39 10 0.09
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.45
Consensus pattern (34 bp):
AAAACATATATTATATTTTTTAAAAAATTTTAAA
Found at i:1074151 original size:33 final size:33
Alignment explanation
Indices: 1074114--1074177 Score: 128
Period size: 33 Copynumber: 1.9 Consensus size: 33
1074104 AAAAACCATT
1074114 TTAAAAAAACTATATATTATATGTTTTCAAATA
1 TTAAAAAAACTATATATTATATGTTTTCAAATA
1074147 TTAAAAAAACTATATATTATATGTTTTCAAA
1 TTAAAAAAACTATATATTATATGTTTTCAAA
1074178 AATATGTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (33 bp):
TTAAAAAAACTATATATTATATGTTTTCAAATA
Found at i:1074251 original size:72 final size:70
Alignment explanation
Indices: 1074083--1074387 Score: 289
Period size: 70 Copynumber: 4.3 Consensus size: 70
1074073 GAAAAACCAT
* *
1074083 AAAAC-ATATATTATATTTTTTAAAAACCAT-TTTAAAAAAACTATATAT-TATATG-TTTTCAA
1 AAAACTATATATTATATTTTTTAAAAA--ATGTTT-TAAAAACTATATATATATATGTTTTTAAA
* ***
1074144 ATATTAAA
63 ATGTTTTC
*
1074152 AAAACTATATATTATATGTTTTCAAAAATATGTTTTAAAAACTATATTATATATATGTTTTTTAA
1 AAAACTATATATTATAT-TTTTTAAAAA-ATGTTTTAAAAACTATA-TATATATATG-TTTTTAA
1074217 AATGTTTTC
62 AATGTTTTC
* *
1074226 -AAACCATATATTATATTTTTT-AAAAATGTTTTCAAAACTATATATTATATATGTTTTTAAAAT
1 AAAACTATATATTATATTTTTTAAAAAATGTTTTAAAAACTATATA-TATATATGTTTTTAAAAT
1074289 GTTTTCC
65 GTTTT-C
* * * * * * * *
1074296 AAAATTATATATTATATATTTAAAAAAAAGTTTTCAAAACTATATCTTATATATATTTTCAAAAA
1 AAAACTATATATTATATTTTTTAAAAAATGTTTTAAAAACTATAT-ATATATATGTTTT--TAAA
* *
1074361 ATATTTGC
63 ATGTTTTC
1074369 AAAACTATATATTATATTT
1 AAAACTATATATTATATTT
1074388 GTTATCAAAA
Statistics
Matches: 199, Mismatches: 23, Indels: 24
0.81 0.09 0.10
Matches are distributed among these distances:
69 22 0.11
70 48 0.24
71 36 0.18
72 42 0.21
73 33 0.17
74 18 0.09
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.46
Consensus pattern (70 bp):
AAAACTATATATTATATTTTTTAAAAAATGTTTTAAAAACTATATATATATATGTTTTTAAAATG
TTTTC
Found at i:1074299 original size:37 final size:36
Alignment explanation
Indices: 1074119--1074390 Score: 240
Period size: 36 Copynumber: 7.6 Consensus size: 36
1074109 CCATTTTAAA
* * ***
1074119 AAAACTATATA-T-TATATGTTTT-CAAATATTAAA
1 AAAACTATATATTATATATGTTTTAAAAATGTTTTC
*
1074152 AAAACTATATA-T-TATATGTTTTCAAAAATATGTTTTA
1 AAAACTATATATTATATATGTTTT--AAAA-ATGTTTTC
*
1074189 AAAACTATAT-TATATATATGTTTTTTAAAATGTTTTC
1 AAAACTATATAT-TATATATG-TTTTAAAAATGTTTTC
*
1074226 -AAACCATATATTATAT-T-TTTTAAAAATGTTTTC
1 AAAACTATATATTATATATGTTTTAAAAATGTTTTC
*
1074259 AAAACTATATATTATATATGTTTTTAAAATGTTTTCC
1 AAAACTATATATTATATATGTTTTAAAAATGTTTT-C
* ** *
1074296 AAAATTATATATTATATAT-TTAAAAAAAAGTTTTC
1 AAAACTATATATTATATATGTTTTAAAAATGTTTTC
* * * *
1074331 AAAACTATATCTTATATATATTTTCAAAAAATATTTGC
1 AAAACTATATATTATATATGTTTT--AAAAATGTTTTC
*
1074369 AAAACTATATATTATATTTGTT
1 AAAACTATATATTATATATGTT
1074391 ATCAAAAAAA
Statistics
Matches: 198, Mismatches: 25, Indels: 27
0.79 0.10 0.11
Matches are distributed among these distances:
33 37 0.19
34 15 0.08
35 20 0.10
36 42 0.21
37 42 0.21
38 32 0.16
39 6 0.03
40 4 0.02
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (36 bp):
AAAACTATATATTATATATGTTTTAAAAATGTTTTC
Found at i:1079444 original size:35 final size:34
Alignment explanation
Indices: 1079404--1079506 Score: 127
Period size: 35 Copynumber: 2.9 Consensus size: 34
1079394 TAAAACAAAT
*
1079404 TACTGAACAAAAGAAAAATGCA-TTCAAAAGAAAAG
1 TACTGAA-AAAAGAAAATTG-AGTTCAAAAGAAAAG
* *
1079439 TACTGAATGAAAGAAAATTGAGTTCAAAAGAAAGG
1 TACTGAA-AAAAGAAAATTGAGTTCAAAAGAAAAG
*
1079474 TAATGAAAGAAAGAAAATTGAGTTCAAAAGAAA
1 TACTGAAA-AAAGAAAATTGAGTTCAAAAGAAA
1079507 TGAAATACGA
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
34 1 0.02
35 59 0.98
ACGTcount: A:0.57, C:0.07, G:0.18, T:0.17
Consensus pattern (34 bp):
TACTGAAAAAAGAAAATTGAGTTCAAAAGAAAAG
Found at i:1087688 original size:11 final size:11
Alignment explanation
Indices: 1087672--1087710 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
1087662 AAATGGTTAT
1087672 ATAATAAATAA
1 ATAATAAATAA
1087683 ATAATAAAT-A
1 ATAATAAATAA
1087693 ATAAT-AATATA
1 ATAATAAATA-A
1087704 ATAATAA
1 ATAATAA
1087711 CGAAAAACCA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
9 3 0.12
10 6 0.24
11 15 0.60
12 1 0.04
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
ATAATAAATAA
Found at i:1087695 original size:14 final size:15
Alignment explanation
Indices: 1087670--1087710 Score: 59
Period size: 14 Copynumber: 2.8 Consensus size: 15
1087660 TGAAATGGTT
1087670 ATATAATAAATAAATA
1 ATATAAT-AATAAATA
1087686 ATA-AATAAT-AATA
1 ATATAATAATAAATA
1087699 ATATAATAATAA
1 ATATAATAATAA
1087711 CGAAAAACCA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
13 7 0.30
14 9 0.39
15 4 0.17
16 3 0.13
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
ATATAATAATAAATA
Found at i:1087695 original size:18 final size:18
Alignment explanation
Indices: 1087672--1087707 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
1087662 AAATGGTTAT
1087672 ATAATAAATAA-ATAATAA
1 ATAAT-AATAATATAATAA
1087690 ATAATAATAATATAATAA
1 ATAATAATAATATAATAA
1087708 TAACGAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
ATAATAATAATATAATAA
Found at i:1087801 original size:39 final size:37
Alignment explanation
Indices: 1087722--1087963 Score: 106
Period size: 37 Copynumber: 6.5 Consensus size: 37
1087712 GAAAAACCAT
* *
1087722 AAAAAC-ATATATTATAT-TTTCAAAAAAAAACATTTTAA
1 AAAAACTATATATTATATGTTT-TAAAAAAAACA-TTT-C
* **
1087760 AAAAACTATATATTATATGTTTTAAAAAATATGTTTC
1 AAAAACTATATATTATATGTTTTAAAAAAAACATTTC
** *
1087797 AAAAACTATATTATATATATGTTTT--TTAAAACGTTTTC
1 AAAAACTATA-TAT-TATATGTTTTAAAAAAAAC-ATTTC
* * * ***
1087835 -AAAACCATATATTATACGCTTTTTAAAAAATTTTTTC
1 AAAAACTATATATTATATG-TTTTAAAAAAAACATTTC
* ***
1087872 -AAAACTATATATTATATACGTTTT--TAAAATGTTTTC
1 AAAAACTATATATTATAT--GTTTTAAAAAAAACATTTC
** * * **
1087908 TTAAATTATATATTATATATATTTCAAAAAAAAGTTTTC
1 AAAAACTATATATTATATGT-TTT-AAAAAAAACATTTC
1087947 -AAAACTATATATTATAT
1 AAAAACTATATATTATAT
1087964 ATATTTTCAA
Statistics
Matches: 162, Mismatches: 27, Indels: 30
0.74 0.12 0.14
Matches are distributed among these distances:
35 6 0.04
36 20 0.12
37 56 0.35
38 38 0.23
39 39 0.24
40 3 0.02
ACGTcount: A:0.45, C:0.08, G:0.03, T:0.43
Consensus pattern (37 bp):
AAAAACTATATATTATATGTTTTAAAAAAAACATTTC
Found at i:1087839 original size:74 final size:73
Alignment explanation
Indices: 1087761--1088001 Score: 231
Period size: 74 Copynumber: 3.2 Consensus size: 73
1087751 ACATTTTAAA
1087761 AAAACTATATATTATATGTTTTAAAAAATATGTTTCAAAAACTATATTATATATATGTTTTTTAA
1 AAAACTATATATTATATGTTTTAAAAAATATGTTTC-AAAACTATATTATATATATGTTTTTTAA
*
1087826 AACGTTTTC
65 AATGTTTTC
* * * *
1087835 AAAACCATATATTATACGCTTTTTAAAAAAT-TTTTTCAAAACTATA-TATTATATACG-TTTTT
1 AAAACTATATATTATATG--TTTTAAAAAATATGTTTCAAAACTATATTA-TATATATGTTTTTT
1087897 AAAATGTTTTC
63 AAAATGTTTTC
* * * *
1087908 TTAAATTATATATTATATATATTTCAAAAAA-AAGTTTTCAAAACTATATATTATATATAT-TTT
1 -AAAACTATATATTATATGT-TTT-AAAAAATATG-TTTCAAAAC--TATATTATATATATGTTT
*** *
1087971 CAAAAAATGTTTTT
60 TTTAAAATGTTTTC
*
1087985 GAAACTATATATTATAT
1 AAAACTATATATTATAT
1088002 ATGTTATCGA
Statistics
Matches: 136, Mismatches: 19, Indels: 22
0.77 0.11 0.12
Matches are distributed among these distances:
72 1 0.01
73 20 0.15
74 51 0.38
75 14 0.10
76 26 0.19
77 22 0.16
78 2 0.01
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (73 bp):
AAAACTATATATTATATGTTTTAAAAAATATGTTTCAAAACTATATTATATATATGTTTTTTAAA
ATGTTTTC
Found at i:1087972 original size:39 final size:37
Alignment explanation
Indices: 1087761--1088003 Score: 192
Period size: 37 Copynumber: 6.5 Consensus size: 37
1087751 ACATTTTAAA
*
1087761 AAAACTATATA-T-TATATGTTTTAAAAAATA-TGTTTC
1 AAAACTATATATTATATATATTTTAAAAAA-AGT-TTTC
* ** *
1087797 AAAAACTATAT-TATATATATGTTTTTTAAAACGTTTTC
1 -AAAACTATATAT-TATATATATTTTAAAAAAAGTTTTC
* ** **
1087835 AAAACCATATATTATACGCT-TTTTAAAAAATTTTTTC
1 AAAACTATATATTATA-TATATTTTAAAAAAAGTTTTC
** * *
1087872 AAAACTATATATTATATACGTTTT-TAAAATGTTTTC
1 AAAACTATATATTATATATATTTTAAAAAAAGTTTTC
* * *
1087908 TTAAATTATATATTATATATATTTCAAAAAAAAGTTTTC
1 -AAAACTATATATTATATATATTT-TAAAAAAAGTTTTC
* *
1087947 AAAACTATATATTATATATATTTTCAAAAAATGTTTTT
1 AAAACTATATATTATATATATTTT-AAAAAAAGTTTTC
*
1087985 GAAACTATATATTATATAT
1 AAAACTATATATTATATAT
1088004 GTTATCGAAA
Statistics
Matches: 166, Mismatches: 29, Indels: 21
0.77 0.13 0.10
Matches are distributed among these distances:
36 10 0.06
37 74 0.45
38 57 0.34
39 25 0.15
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (37 bp):
AAAACTATATATTATATATATTTTAAAAAAAGTTTTC
Found at i:1091689 original size:118 final size:116
Alignment explanation
Indices: 1091445--1091796 Score: 407
Period size: 118 Copynumber: 3.0 Consensus size: 116
1091435 GAGGTGGAGT
* * * * * * * *
1091445 GATTCTGATATACTGTGGTGTTCCTGAAGGTACACTAGTACATATATTCTAATGTGATTGTACTT
1 GATTCTGATATACTGTGGTGTACCAGGA-GTGCACTAGTATATATATTCTGATATGATTGCACTT
* * * * * *
1091510 TGAGTGCACATCAAATTCTGATATGATAACACTGTGGGTGCTTATATGTTCC
65 TGTGTGCACATTAGATTCTGATATGATAGCACTGTGTGTGCTTATATATTCC
* * *
1091562 GATTTTGATATACTGTGGTGTACCAGCGAGTGCACTAGTGTATATATTCGGATATGATTGCACTT
1 GATTCTGATATACTGTGGTGTACCAG-GAGTGCACTAGTATATATATTCTGATATGATTGCACTT
* * *
1091627 CGTGTGGACATTACGATTCTGATATGATAGCACTGTGTGTGCTTATATATTTC
65 TGTGTGCACATTA-GATTCTGATATGATAGCACTGTGTGTGCTTATATATTCC
* ** * *
1091680 GATTCTGATATACTGCGGCATACCAATGAGTGCACTAGTATATATATTTTGATATGATTGCACTT
1 GATTCTGATATACTGTGGTGTACC-AGGAGTGCACTAGTATATATATTCTGATATGATTGCACTT
* * *
1091745 TGTGTGCACATTATGATTTTGATATGATAGCACTATGTGTGCTTATTTATTC
65 TGTGTGCACATTA-GATTCTGATATGATAGCACTGTGTGTGCTTATATATTC
1091797 TGATAATGAT
Statistics
Matches: 197, Mismatches: 35, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
117 61 0.31
118 135 0.69
119 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.21, T:0.39
Consensus pattern (116 bp):
GATTCTGATATACTGTGGTGTACCAGGAGTGCACTAGTATATATATTCTGATATGATTGCACTTT
GTGTGCACATTAGATTCTGATATGATAGCACTGTGTGTGCTTATATATTCC
Found at i:1093410 original size:2 final size:2
Alignment explanation
Indices: 1093403--1093449 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
1093393 TGTCAGAAAG
1093403 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1093445 AT AT A
1 AT AT A
1093450 GCTTTTCTAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1097496 original size:118 final size:118
Alignment explanation
Indices: 1097288--1097519 Score: 360
Period size: 118 Copynumber: 2.0 Consensus size: 118
1097278 AAATGGGTGT
*
1097288 TACACATCATGATTATGATATGATAGCACCATGTGTGCATATATGTTCTGATTCTGATATATTGT
1 TACACATCATGATTATGATATGATAGCACCATGTGTGCATATATGTTCTGATTCTGATATAATGT
* *
1097353 GGTGTACCGGTTGGTGCACTAGTATATATATTCTGATATGATTGTACTTCAAG
66 GGTGTACCGGTTCGTGCACTAGTATATATATTCTGATATGATTGCACTTCAAG
** *
1097406 TACACATCATGATTATGATATGATAGCACTGTGTGTGCTTATATGTT-TCGATTCTGATATAATG
1 TACACATCATGATTATGATATGATAGCACCATGTGTGCATATATGTTCT-GATTCTGATATAATG
* *
1097470 TGGTGTATC-GTTACGTGCACTAGTATATATATTCTGATCTGATTGCACTT
65 TGGTGTACCGGTT-CGTGCACTAGTATATATATTCTGATATGATTGCACTT
1097520 TGTGTGCATA
Statistics
Matches: 104, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
117 4 0.04
118 100 0.96
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.40
Consensus pattern (118 bp):
TACACATCATGATTATGATATGATAGCACCATGTGTGCATATATGTTCTGATTCTGATATAATGT
GGTGTACCGGTTCGTGCACTAGTATATATATTCTGATATGATTGCACTTCAAG
Found at i:1097543 original size:118 final size:118
Alignment explanation
Indices: 1097288--1097581 Score: 349
Period size: 118 Copynumber: 2.5 Consensus size: 118
1097278 AAATGGGTGT
* * * *
1097288 TACACATCATGATTATGATATGATAGCACCATGTGTGCATATATGTTCTGATTCTGATATATTGT
1 TACACATCACGATTATGATATGATAGCACTATGTGTGCTTATATGTTCTGATTCTGATATAATGT
* *
1097353 GGTGTACCGGTTGGTGCACTAGTATATATATTCTGATATGATTGTACTTCAAG
66 GGTGTACCGGTTCGTGCACTAGTATATATATTCTGATATGATTGCACTTCAAG
* *
1097406 TACACATCATGATTATGATATGATAGCACTGTGTGTGCTTATATGTT-TCGATTCTGATATAATG
1 TACACATCACGATTATGATATGATAGCACTATGTGTGCTTATATGTTCT-GATTCTGATATAATG
* * ***
1097470 TGGTGTATC-GTTACGTGCACTAGTATATATATTCTGATCTGATTGCACTTTGTG
65 TGGTGTACCGGTT-CGTGCACTAGTATATATATTCTGATATGATTGCACTTCAAG
* * * * * * * * * *
1097524 TGCATATTACGATTCTGATATGATAACATTATGTGTGTTTATATATTCTCATTATGAT
1 TACACATCACGATTATGATATGATAGCACTATGTGTGCTTATATGTTCTGATTCTGAT
1097582 GATAGTAGTG
Statistics
Matches: 150, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
117 4 0.03
118 145 0.97
119 1 0.01
ACGTcount: A:0.27, C:0.13, G:0.19, T:0.41
Consensus pattern (118 bp):
TACACATCACGATTATGATATGATAGCACTATGTGTGCTTATATGTTCTGATTCTGATATAATGT
GGTGTACCGGTTCGTGCACTAGTATATATATTCTGATATGATTGCACTTCAAG
Found at i:1101144 original size:20 final size:20
Alignment explanation
Indices: 1101119--1101156 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1101109 TGAGCTTCTC
1101119 ATTTTTCTCTCCAT-ATTTTT
1 ATTTTTCT-TCCATCATTTTT
1101139 ATTTTTCTTCCATCATTT
1 ATTTTTCTTCCATCATTT
1101157 ACTCCAAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.16, C:0.21, G:0.00, T:0.63
Consensus pattern (20 bp):
ATTTTTCTTCCATCATTTTT
Found at i:1101757 original size:15 final size:15
Alignment explanation
Indices: 1101745--1101778 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
1101735 TACAAGTACG
*
1101745 AATATTGTGAGTATC
1 AATATTGCGAGTATC
*
1101760 AATATTGCGAGTGTC
1 AATATTGCGAGTATC
1101775 AATA
1 AATA
1101779 CTATGAGTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (15 bp):
AATATTGCGAGTATC
Found at i:1103631 original size:56 final size:56
Alignment explanation
Indices: 1103542--1104032 Score: 715
Period size: 56 Copynumber: 8.9 Consensus size: 56
1103532 AATGGCATTG
* *
1103542 TGTGTGCAGAAACTAAGTAATTCATAATGAGTTTATGAATTTTCGTATGGGCACTT
1 TGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTATGGGCACTT
* *
1103598 TGGGTGCAAAAACTAAGAAATTCATAATGAGTTTATAAATTTTCGTATGGGCACTT
1 TGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTATGGGCACTT
*
1103654 TGTGTGC-AAAACTAAGAAATTCAGAATGAGTTTATGAATTTTCGTATGGGCACTT
1 TGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTATGGGCACTT
*
1103709 TGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTT
1 TGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTATGGGCACTT
* *
1103765 TATGTGCAAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTT
1 TGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTATGGGCACTT
* * * *
1103821 TGTGTG-AAAAGCTAAGAAATTCATTATAAGTTTATGAA-TTTCTGTATGGGTACTT
1 TGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATGAATTTTC-GTATGGGCACTT
* * * *
1103876 TATGAGTAAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTT
1 TGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTATGGGCACTT
* * * *
1103932 TGTGTGC-AAAGCTAAGAAATTCATAATAAGTTTATGAATTTCCTTAT-GGCACTT
1 TGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTATGGGCACTT
* * * *
1103986 GGTGTGC-AAAATTAAGAAATTCATAATAAGTATATGAATTTTCGTAT
1 TGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTAT
1104033 TGGTAGTGCA
Statistics
Matches: 396, Mismatches: 35, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
54 51 0.13
55 134 0.34
56 208 0.53
57 3 0.01
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.36
Consensus pattern (56 bp):
TGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTATGGGCACTT
Found at i:1103676 original size:111 final size:111
Alignment explanation
Indices: 1103542--1104032 Score: 727
Period size: 111 Copynumber: 4.4 Consensus size: 111
1103532 AATGGCATTG
* *
1103542 TGTGTGCAGAAACTAAGTAATTCATAATGAGTTTATGAATTTTCGTATGGGCACTTTGGGTGCAA
1 TGTGTGCA-AAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTATGGGCACTTTGTGTGCAA
* * *
1103607 AAACTAAGAAATTCATAATGAGTTTATAAATTTTCGTATGGGCACTT
65 AAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTT
*
1103654 TGTGTGCAAAACTAAGAAATTCAGAATGAGTTTATGAATTTTCGTATGGGCACTTTGTGTGCAAA
1 TGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTATGGGCACTTTGTGTGCAAA
*
1103719 AACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTT
66 AACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTT
* *
1103765 TATGTGCAAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTGTG-AA
1 TGTGTGC-AAAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTATGGGCACTTTGTGTGCAA
* * * *
1103829 AAGCTAAGAAATTCATTATAAGTTTATGAATTTCTGTATGGGTACTT
65 AAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTT
* * * *
1103876 TATGAGTAAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTGTGC-A
1 TGTGTG-CAAAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTATGGGCACTTTGTGTGCAA
* *
1103940 AAGCTAAGAAATTCATAATAAGTTTATGAATTTCCTTAT-GGCACTT
65 AAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTT
* * * *
1103986 GGTGTGCAAAATTAAGAAATTCATAATAAGTATATGAATTTTCGTAT
1 TGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTAT
1104033 TGGTAGTGCA
Statistics
Matches: 349, Mismatches: 27, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
109 36 0.10
110 9 0.03
111 244 0.70
112 60 0.17
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.36
Consensus pattern (111 bp):
TGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTATGGGCACTTTGTGTGCAAA
AACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTT
Found at i:1103818 original size:167 final size:167
Alignment explanation
Indices: 1103542--1104032 Score: 756
Period size: 167 Copynumber: 3.0 Consensus size: 167
1103532 AATGGCATTG
* * * *
1103542 TGTGTGCAGAAACTAAGTAATTCATAATGAGTTTATGAATTTTCGTATGGGCACTTTGGGTGCAA
1 TGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAA
* *
1103607 AAACTAAGAAATTCATAATGAGTTTATAAATTTTCGTATGGGCACTTTGTGTGCAAAACTAAGAA
66 AAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAACTAAGAA
* *
1103672 ATTCAGAATGAGTTTATGAATTTTCGTATGGGCACTT
131 ATTCATAATAAGTTTATGAATTTTCGTATGGGCACTT
*
1103709 TGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTATGTGCAA
1 TGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAA
1103774 AAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTGTG-AAAAGCTAAGA
66 AAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAA-CTAAGA
* *
1103838 AATTCATTATAAGTTTATGAA-TTTCTGTATGGGTACTT
130 AATTCATAATAAGTTTATGAATTTTC-GTATGGGCACTT
* * *
1103876 TATGAGTAAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTGTGC-A
1 TGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAA
* * * * *
1103940 AAGCTAAGAAATTCATAATAAGTTTATGAATTTCCTTAT-GGCACTTGGTGTGCAAAATTAAGAA
66 AAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAACTAAGAA
*
1104004 ATTCATAATAAGTATATGAATTTTCGTAT
131 ATTCATAATAAGTTTATGAATTTTCGTAT
1104033 TGGTAGTGCA
Statistics
Matches: 298, Mismatches: 22, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
165 40 0.13
166 53 0.18
167 205 0.69
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.36
Consensus pattern (167 bp):
TGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAA
AAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAACTAAGAA
ATTCATAATAAGTTTATGAATTTTCGTATGGGCACTT
Found at i:1109168 original size:23 final size:23
Alignment explanation
Indices: 1109142--1109192 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
1109132 AAGTAAAGGG
1109142 AAAAGGGGAAAAGAGGTCAACCA
1 AAAAGGGGAAAAGAGGTCAACCA
* *
1109165 AAAAGGGGAAAGGAGGTTAACCA
1 AAAAGGGGAAAAGAGGTCAACCA
1109188 AAAAG
1 AAAAG
1109193 CTATCTCTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.53, C:0.10, G:0.31, T:0.06
Consensus pattern (23 bp):
AAAAGGGGAAAAGAGGTCAACCA
Found at i:1110451 original size:111 final size:110
Alignment explanation
Indices: 1110325--1110700 Score: 587
Period size: 111 Copynumber: 3.4 Consensus size: 110
1110315 CCAAATGGCA
*
1110325 TTGTGTGTTAAAAAACTAAGAAATTCATAATGAGTTTATCAACTTTCGTATGGGCAATTTGTGTG
1 TTGTGTG-T-AAAAACTAAGAAATTCATAATGAGTTTATGAA-TTTCGTATGGGCAATTTGTGTG
1110390 CAAAGCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACT
63 CAAAGCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACT
* *
1110438 TTGTGTGTAAAAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTATAGGCACTTTGTGTGCA
1 TTGTGTGTAAAAACTAAGAAATTCATAATGAGTTTATGAA-TTTCGTATGGGCAATTTGTGTGCA
1110503 AAGCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACT
65 AAGCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACT
* * *
1110549 TTGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGC-A-CTGTGTCCA
1 TTGTGTGTAAAAACTAAGAAATTCATAATGAGTTTATGAATTT-CGTATGGGCAATTTGTGTGCA
*
1110612 AAGCTAAGAAATTCATAATAAGTTAATGAATTTTCGTATGGGCACT
65 AAGCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACT
* * * *
1110658 TTGTGTG-CAAAATTAAGAAATTCATAATAAGTATATGAATTTC
1 TTGTGTGTAAAAACTAAGAAATTCATAATGAGTTTATGAATTTC
1110701 CATATTGGTA
Statistics
Matches: 248, Mismatches: 14, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
107 1 0.00
108 31 0.12
109 59 0.24
110 3 0.01
111 146 0.59
112 1 0.00
113 7 0.03
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (110 bp):
TTGTGTGTAAAAACTAAGAAATTCATAATGAGTTTATGAATTTCGTATGGGCAATTTGTGTGCAA
AGCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACT
Found at i:1110718 original size:55 final size:55
Alignment explanation
Indices: 1110336--1110699 Score: 552
Period size: 55 Copynumber: 6.6 Consensus size: 55
1110326 TGTGTGTTAA
* * * *
1110336 AAAACTAAGAAATTCATAATGAGTTTATCAACTTTCGTATGGGCAATTTGTGTGC
1 AAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTTTGTGTGC
* *
1110391 AAAGCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTTTGTGTGTA
1 AAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTTTGTGTG-C
* *
1110447 AAAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTATAGGCACTTTGTGTGC
1 AAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTTTGTGTGC
*
1110502 AAAGCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTTTGTGTGC
1 AAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTTTGTGTGC
* * *
1110557 AAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCAC--TGTGTCC
1 -AAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTTTGTGTGC
* *
1110611 AAAGCTAAGAAATTCATAATAAGTTAATGAATTTTCGTATGGGCACTTTGTGTGC
1 AAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTTTGTGTGC
* *
1110666 AAAATTAAGAAATTCATAATAAGTATATGAATTT
1 AAAACTAAGAAATTCATAATAAGTTTATGAATTT
1110700 CCATATTGGT
Statistics
Matches: 279, Mismatches: 26, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
53 42 0.15
54 6 0.02
55 137 0.49
56 94 0.34
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.35
Consensus pattern (55 bp):
AAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTTTGTGTGC
Found at i:1113839 original size:19 final size:19
Alignment explanation
Indices: 1113815--1113858 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
1113805 TGCCTCGGTA
*
1113815 GCCCAAAGTGGAACTTTAG
1 GCCCAAAGTGAAACTTTAG
*
1113834 GCCCAAAGTGAAACTTTGG
1 GCCCAAAGTGAAACTTTAG
1113853 GCCCAA
1 GCCCAA
1113859 TCAGGTTTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.32, C:0.25, G:0.25, T:0.18
Consensus pattern (19 bp):
GCCCAAAGTGAAACTTTAG
Found at i:1114498 original size:20 final size:19
Alignment explanation
Indices: 1114473--1114519 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
1114463 CAACAGTTTT
* *
1114473 GATACTGACCTTTGGGTATC
1 GATACTGACC-CTGAGTATC
*
1114493 GATACTCACCCTGAGTATC
1 GATACTGACCCTGAGTATC
1114512 GATACTGA
1 GATACTGA
1114520 AAATAAATTC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 14 0.61
20 9 0.39
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (19 bp):
GATACTGACCCTGAGTATC
Found at i:1127504 original size:30 final size:31
Alignment explanation
Indices: 1127470--1127531 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
1127460 GTCAAGTTAT
*
1127470 TATAAAATGATCATT-AATTTTATTAAGTTG
1 TATAAAATAATCATTAAATTTTATTAAGTTG
*
1127500 TATAAAATAATCATTAAATTTTATTAATTTG
1 TATAAAATAATCATTAAATTTTATTAAGTTG
1127531 T
1 T
1127532 TATTAAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 14 0.48
31 15 0.52
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.48
Consensus pattern (31 bp):
TATAAAATAATCATTAAATTTTATTAAGTTG
Found at i:1130994 original size:24 final size:24
Alignment explanation
Indices: 1130967--1131013 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
1130957 TTTATATGAT
* *
1130967 ATTTATGGTGTAATTCTACGAGGC
1 ATTTATAGTGCAATTCTACGAGGC
* *
1130991 ATTTTTAGTGCAATTCTATGAGG
1 ATTTATAGTGCAATTCTACGAGG
1131014 TACTTTCGAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.26, C:0.11, G:0.23, T:0.40
Consensus pattern (24 bp):
ATTTATAGTGCAATTCTACGAGGC
Found at i:1131187 original size:28 final size:30
Alignment explanation
Indices: 1131132--1131188 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 30
1131122 ATTTAAATAC
* **
1131132 ATGAAAAATATAAACTTATATGGTTCGAAT
1 ATGAAAAATAAAAACTTATATGAATCGAAT
1131162 ATGAAAAA-AAAAAC-TATATGAATCGAA
1 ATGAAAAATAAAAACTTATATGAATCGAA
1131189 AAATAACAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 11 0.46
29 5 0.21
30 8 0.33
ACGTcount: A:0.54, C:0.07, G:0.12, T:0.26
Consensus pattern (30 bp):
ATGAAAAATAAAAACTTATATGAATCGAAT
Found at i:1131633 original size:16 final size:16
Alignment explanation
Indices: 1131613--1131650 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
1131603 TAATATTAAG
*
1131613 TATTAATAGTAATATAA
1 TATTAATA-AAATATAA
1131630 -ATTAATAAAATATAA
1 TATTAATAAAATATAA
1131645 TATTAA
1 TATTAA
1131651 ATTATGTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (16 bp):
TATTAATAAAATATAA
Found at i:1133822 original size:31 final size:31
Alignment explanation
Indices: 1133762--1133949 Score: 186
Period size: 31 Copynumber: 6.0 Consensus size: 31
1133752 GATCCTCGGT
* * *
1133762 AACTGTCTATAGGTTCCG-ATGAACCTAGGTA
1 AACTGTCCATATGTTCCGTA-GAACATAGGTA
*
1133793 AACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATATGTTCCGTAGAACATAGGTA
* *
1133824 TACTGTCCATATG-TCTCG-AAAGACATAGGTA
1 AACTGTCCATATGTTC-CGTAGA-ACATAGGTA
*
1133855 ATTCTGTCCATATGTTCCGTAGAACATAGGTA
1 A-ACTGTCCATATGTTCCGTAGAACATAGGTA
* * *
1133887 TACTGTCCATATG-TCTCGAAAAACATAGGTA
1 AACTGTCCATATGTTC-CGTAGAACATAGGTA
* *
1133918 ATTCTGTCTATATGTTCCGTAGAACATAGGTA
1 A-ACTGTCCATATGTTCCGTAGAACATAGGTA
1133950 TACCCTCGAC
Statistics
Matches: 129, Mismatches: 19, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
30 6 0.05
31 71 0.55
32 46 0.36
33 6 0.05
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.32
Consensus pattern (31 bp):
AACTGTCCATATGTTCCGTAGAACATAGGTA
Found at i:1133870 original size:63 final size:63
Alignment explanation
Indices: 1133787--1133952 Score: 289
Period size: 63 Copynumber: 2.7 Consensus size: 63
1133777 CCGATGAACC
* * *
1133787 TAGGTAA-ACTGTCCATATGTTCCTTAGAACATAGGTATACTGTCCATATGTCTCGAAAGACA
1 TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATACTGTCCATATGTCTCGAAAAACA
1133849 TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATACTGTCCATATGTCTCGAAAAACA
1 TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATACTGTCCATATGTCTCGAAAAACA
*
1133912 TAGGTAATTCTGTCTATATGTTCCGTAGAACATAGGTATAC
1 TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATAC
1133953 CCTCGACTCT
Statistics
Matches: 99, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
62 7 0.07
63 92 0.93
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (63 bp):
TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATACTGTCCATATGTCTCGAAAAACA
Found at i:1136547 original size:30 final size:30
Alignment explanation
Indices: 1136513--1136657 Score: 175
Period size: 30 Copynumber: 4.8 Consensus size: 30
1136503 TTAGTACAAG
*
1136513 TTTAGTCCTTTAAATTTCTATTTTTGCTAT
1 TTTAGTCCTTTAAGTTTCTATTTTTGCTAT
* *
1136543 TTTAGTCCTTTAAGTTTTTATTTTTTCTAT
1 TTTAGTCCTTTAAGTTTCTATTTTTGCTAT
* * * *
1136573 TTCAATCCTTTGAGTTTCTGTTTTTGCTAT
1 TTTAGTCCTTTAAGTTTCTATTTTTGCTAT
* *
1136603 TTT-GATCCTTTAACTTTCTATTTTTGATAT
1 TTTAG-TCCTTTAAGTTTCTATTTTTGCTAT
* *
1136633 TTTAATCTTTTAAGTTTCTATTTTT
1 TTTAGTCCTTTAAGTTTCTATTTTT
1136658 TGGTCCTTCA
Statistics
Matches: 95, Mismatches: 18, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
30 95 1.00
ACGTcount: A:0.18, C:0.12, G:0.08, T:0.62
Consensus pattern (30 bp):
TTTAGTCCTTTAAGTTTCTATTTTTGCTAT
Found at i:1140330 original size:19 final size:19
Alignment explanation
Indices: 1140306--1140357 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
1140296 AGAGAAAAGA
1140306 AGCAAAGAGAAAAATAGAT
1 AGCAAAGAGAAAAATAGAT
1140325 AGCAAAGAAGAAAAA-A-AT
1 AGCAAAG-AGAAAAATAGAT
1140343 --CAAAGA-AAAAATAGA
1 AGCAAAGAGAAAAATAGA
1140358 AAGAAAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
14 5 0.17
15 2 0.07
16 6 0.20
18 2 0.07
19 8 0.27
20 7 0.23
ACGTcount: A:0.69, C:0.06, G:0.17, T:0.08
Consensus pattern (19 bp):
AGCAAAGAGAAAAATAGAT
Found at i:1140353 original size:34 final size:34
Alignment explanation
Indices: 1140293--1140357 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
1140283 ATAATCAAAA
*
1140293 CAAAGAGAAAAGAAGCAAAGAGAAAAATAGATAG
1 CAAAGAGAAAAAAAGCAAAGAGAAAAATAGATAG
*
1140327 CAAAGAAGAAAAAAATCAAAGA-AAAAATAGA
1 CAAAG-AGAAAAAAAGCAAAGAGAAAAATAGA
1140358 AAGAAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 14 0.50
35 14 0.50
ACGTcount: A:0.69, C:0.06, G:0.18, T:0.06
Consensus pattern (34 bp):
CAAAGAGAAAAAAAGCAAAGAGAAAAATAGATAG
Found at i:1140365 original size:14 final size:13
Alignment explanation
Indices: 1140332--1140416 Score: 90
Period size: 12 Copynumber: 6.7 Consensus size: 13
1140322 GATAGCAAAG
1140332 AAGAAAAAAATCA
1 AAGAAAAAAATCA
*
1140345 AAG-AAAAAATAGA
1 AAGAAAAAAAT-CA
1140358 AAGAAAAAAAT-A
1 AAGAAAAAAATCA
*
1140370 AAGAAAAAGAAACA
1 AAGAAAAA-AATCA
1140384 AAGACAAAAAATCA
1 AAGA-AAAAAATCA
1140398 AAG--AAAAA-CA
1 AAGAAAAAAATCA
1140408 AAGAAAAAA
1 AAGAAAAAA
1140417 GGGAAAGAAG
Statistics
Matches: 62, Mismatches: 3, Indels: 15
0.77 0.04 0.19
Matches are distributed among these distances:
10 5 0.08
11 5 0.08
12 20 0.32
13 9 0.15
14 19 0.31
15 4 0.06
ACGTcount: A:0.79, C:0.06, G:0.11, T:0.05
Consensus pattern (13 bp):
AAGAAAAAAATCA
Found at i:1140380 original size:22 final size:23
Alignment explanation
Indices: 1140328--1140416 Score: 83
Period size: 26 Copynumber: 3.6 Consensus size: 23
1140318 AATAGATAGC
1140328 AAAG-AAGAAAAAAATCAAAGAAAA
1 AAAGAAAGAAAAAAATCAAAG--AA
1140352 AATAGAAAGAAAAAAAT-AAAGAA
1 AA-AGAAAGAAAAAAATCAAAGAA
1140375 AAAGAAACAAAGACAAAAAATCAAAGAA
1 AAAG----AAAGA-AAAAAATCAAAGAA
*
1140403 AAACAAAGAAAAAA
1 AAAGAAAGAAAAAA
1140417 GGGAAAGAAG
Statistics
Matches: 56, Mismatches: 1, Indels: 17
0.76 0.01 0.23
Matches are distributed among these distances:
22 2 0.04
23 9 0.16
24 7 0.12
25 6 0.11
26 16 0.29
27 7 0.12
28 9 0.16
ACGTcount: A:0.79, C:0.06, G:0.11, T:0.04
Consensus pattern (23 bp):
AAAGAAAGAAAAAAATCAAAGAA
Found at i:1141668 original size:37 final size:38
Alignment explanation
Indices: 1141597--1141669 Score: 105
Period size: 37 Copynumber: 1.9 Consensus size: 38
1141587 TTTGATGTTA
* *
1141597 TTTCTCTCGAAACAAAATGTTGTCTCGCTTGAGACAGT
1 TTTCTCTCAAAACAAAATGTTGTCTCACTTGAGACAGT
1141635 TTTCTCTCAAAAC-AAAT-TTCGTCTCACTTGAGACA
1 TTTCTCTCAAAACAAAATGTT-GTCTCACTTGAGACA
1141670 TAACCCATCT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
36 2 0.06
37 18 0.56
38 12 0.38
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (38 bp):
TTTCTCTCAAAACAAAATGTTGTCTCACTTGAGACAGT
Found at i:1141837 original size:30 final size:30
Alignment explanation
Indices: 1141801--1141896 Score: 158
Period size: 30 Copynumber: 3.2 Consensus size: 30
1141791 AAGGAAAATA
1141801 TTTGAGTCTATTTCTCTTGAAACAAAAGTC
1 TTTGAGTCTATTTCTCTTGAAACAAAAGTC
1141831 TTTGAGTCTATTTCTCTTGAAACAAAAGTC
1 TTTGAGTCTATTTCTCTTGAAACAAAAGTC
* *
1141861 TTTGAGTTTGTTTCTCTTGAAACAAACA-TC
1 TTTGAGTCTATTTCTCTTGAAACAAA-AGTC
1141891 TTTGAG
1 TTTGAG
1141897 ATTGTTTCCC
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
30 62 0.98
31 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.42
Consensus pattern (30 bp):
TTTGAGTCTATTTCTCTTGAAACAAAAGTC
Found at i:1141902 original size:30 final size:29
Alignment explanation
Indices: 1141801--1141912 Score: 145
Period size: 30 Copynumber: 3.7 Consensus size: 29
1141791 AAGGAAAATA
*
1141801 TTTGAGTCTATTTCTCTTGAAACAAAAGTC
1 TTTGAGT-TGTTTCTCTTGAAACAAAAGTC
*
1141831 TTTGAGTCTATTTCTCTTGAAACAAAAGTC
1 TTTGAGT-TGTTTCTCTTGAAACAAAAGTC
1141861 TTTGAGTTTGTTTCTCTTGAAACAAACA-TC
1 TTTGAG-TTGTTTCTCTTGAAACAAA-AGTC
*
1141891 TTTGAGATTGTTTCCCTTGAAA
1 TTTGAG-TTGTTTCTCTTGAAA
1141913 TGAATTTTGT
Statistics
Matches: 77, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
30 75 0.97
31 2 0.03
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.42
Consensus pattern (29 bp):
TTTGAGTTGTTTCTCTTGAAACAAAAGTC
Found at i:1142426 original size:3 final size:3
Alignment explanation
Indices: 1142413--1142467 Score: 53
Period size: 3 Copynumber: 18.7 Consensus size: 3
1142403 CTCGAAAAAA
* *
1142413 TAT TA- TAT TAT TAT TAA T-T TAT TAT TAT TAT TGT GT-T TAT TAAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT T-AT
1142457 TAT TAT TAT TA
1 TAT TAT TAT TA
1142468 ATATAAATAT
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
2 4 0.09
3 36 0.82
4 4 0.09
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:1144056 original size:30 final size:30
Alignment explanation
Indices: 1144016--1144111 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
1144006 TGAGATTCTA
*
1144016 TTTTTACTATTTTAGTCCTTTTAGTTTTTG
1 TTTTTGCTATTTTAGTCCTTTTAGTTTTTG
* * *
1144046 TTTTTGCTATTTT-GATCCTTTAACTTTCTG
1 TTTTTGCTATTTTAG-TCCTTTTAGTTTTTG
* * *
1144076 TTTTTGATAATTTAAT-CTTTTAAGTTTTTG
1 TTTTTGCTATTTTAGTCCTTTT-AGTTTTTG
1144106 TTTTTG
1 TTTTTG
1144112 TTTTTGTTTT
Statistics
Matches: 53, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
29 5 0.09
30 48 0.91
ACGTcount: A:0.16, C:0.09, G:0.10, T:0.65
Consensus pattern (30 bp):
TTTTTGCTATTTTAGTCCTTTTAGTTTTTG
Found at i:1149527 original size:6 final size:6
Alignment explanation
Indices: 1149516--1149542 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
1149506 TGAAGGTAAT
1149516 GGGTTA GGGTTA GGGTTA GGGTTA GGG
1 GGGTTA GGGTTA GGGTTA GGGTTA GGG
1149543 ATATATTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.56, T:0.30
Consensus pattern (6 bp):
GGGTTA
Found at i:1149933 original size:31 final size:31
Alignment explanation
Indices: 1149895--1150003 Score: 128
Period size: 31 Copynumber: 3.5 Consensus size: 31
1149885 CATCGATTCT
* * * *
1149895 TCCGATTTAAGTTCCTAACGTTATCGGTCCG
1 TCCGATTTCAGTCCCTAACATTATCGGTCCA
* *
1149926 TCTGATTTCAGTCCCTAACATTATCGGTTCA
1 TCCGATTTCAGTCCCTAACATTATCGGTCCA
* *
1149957 TCCGATTTCAGTCCCTAACATTATCAGTCTA
1 TCCGATTTCAGTCCCTAACATTATCGGTCCA
* *
1149988 TTCGATTTTAGTCCCT
1 TCCGATTTCAGTCCCT
1150004 CAGCCATGTT
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 66 1.00
ACGTcount: A:0.21, C:0.27, G:0.14, T:0.39
Consensus pattern (31 bp):
TCCGATTTCAGTCCCTAACATTATCGGTCCA
Found at i:1150426 original size:3 final size:3
Alignment explanation
Indices: 1150418--1150471 Score: 65
Period size: 3 Copynumber: 18.0 Consensus size: 3
1150408 AAATTTAAAT
** *
1150418 TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA ATA TTA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1150465 TTTA TTA
1 -TTA TTA
1150472 AATATTACGA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
2 2 0.05
3 38 0.88
4 3 0.07
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:1150439 original size:18 final size:18
Alignment explanation
Indices: 1150412--1150466 Score: 85
Period size: 18 Copynumber: 3.1 Consensus size: 18
1150402 CATTTTAAAT
*
1150412 TTAAATTTATTATTATTA
1 TTAAAATTATTATTATTA
1150430 TTAAAATTATTATTATTA
1 TTAAAATTATTATTATTA
*
1150448 TTAATATTATTA-TATTA
1 TTAAAATTATTATTATTA
1150465 TT
1 TT
1150467 TATTAAATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
17 7 0.20
18 28 0.80
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TTAAAATTATTATTATTA
Found at i:1152981 original size:28 final size:28
Alignment explanation
Indices: 1152940--1153005 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 28
1152930 TTAATTTTTA
*
1152940 ATTTTTTTATTTTTTAAAAAAATTATA-T
1 ATTTTATTA-TTTTTAAAAAAATTATATT
* * *
1152968 ATATTTATTATTTTTATAATATTTATATT
1 AT-TTTATTATTTTTAAAAAAATTATATT
1152997 ATTTTATTA
1 ATTTTATTA
1153006 ATGTTTTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 23 0.72
29 9 0.28
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (28 bp):
ATTTTATTATTTTTAAAAAAATTATATT
Found at i:1152996 original size:20 final size:22
Alignment explanation
Indices: 1152973--1153023 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 22
1152963 TATATATATT
1152973 TATTATTTTTA-TAAT-ATTTA
1 TATTATTTTTATTAATGATTTA
*
1152993 TATTA-TTTTATTAATGTTTTA
1 TATTATTTTTATTAATGATTTA
*
1153014 TTTTATTTTT
1 TATTATTTTT
1153024 CAAGTATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 5 0.19
20 9 0.35
21 8 0.31
22 4 0.15
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (22 bp):
TATTATTTTTATTAATGATTTA
Found at i:1163131 original size:22 final size:22
Alignment explanation
Indices: 1163106--1163182 Score: 91
Period size: 22 Copynumber: 3.5 Consensus size: 22
1163096 ATCTACACTT
*
1163106 TTCAAAGATGATAGACTATTTC
1 TTCAAAGATGATAGACTATCTC
*
1163128 TTCAAAGATGATAGCCTATCTC
1 TTCAAAGATGATAGACTATCTC
* * * * *
1163150 TTTAAAGATGATATATTCTCTT
1 TTCAAAGATGATAGACTATCTC
1163172 TTCAAAGATGA
1 TTCAAAGATGA
1163183 AAGCTTTATT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (22 bp):
TTCAAAGATGATAGACTATCTC
Found at i:1163903 original size:45 final size:45
Alignment explanation
Indices: 1163839--1163964 Score: 164
Period size: 45 Copynumber: 2.8 Consensus size: 45
1163829 CGATTTCCCA
* *
1163839 CATCTGTAAGTCCTTCAGTGCTTGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* * *
1163884 CATCTGTAAGCCCTTCAGTGCATGATGCTTTCAAAATCTTTGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* * *
1163929 CATCCGTAAACCCTGT-AGTGCAGGATGTTTTCAAAA
1 CATCTGTAAGCCCT-TCAGTGCATGATGTTTTCAAAA
1163965 AGCCTTCAGG
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
45 70 0.99
46 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (45 bp):
CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
Found at i:1164038 original size:45 final size:45
Alignment explanation
Indices: 1163982--1164095 Score: 147
Period size: 45 Copynumber: 2.5 Consensus size: 45
1163972 AGGAGCTTTT
* * *
1163982 TGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCCGTAAGCCCTGCAGTGCA
**
1164027 TGATGTTTTCAAAACCTTTAGGTCATCCGTAAGCCCTGCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCCGTAAGCCCTGCAGTGCA
* *
1164072 GGATGTTTATAAAAAGCCTTCGGG
1 TGATGTTT-TCAAAA-CCTTCGGG
1164096 AGCTTTTTGA
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
45 47 0.81
46 5 0.09
47 6 0.10
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTCGGGTCATCCGTAAGCCCTGCAGTGCA
Found at i:1164074 original size:121 final size:121
Alignment explanation
Indices: 1163860--1164336 Score: 760
Period size: 121 Copynumber: 4.0 Consensus size: 121
1163850 CCTTCAGTGC
* * *
1163860 TTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGCTTTCAAAATCTTT
1 TTGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGCTTTCAAAACCTTC
* * * *
1163925 GGGTCATCCGTAAACCCTGTAGTGCAGGATGTTTTCAAAAAGCCTTCAGGAGCTTT
66 AGGTCATCCGTAAGCCCTGCAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTT
* *
1163981 TTGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTT
1 TTGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGCTTTCAAAACCTTC
1164046 AGGTCATCCGTAAGCCCTGCAGTGCAGGATGTTTAT-AAAAAGCCTTCGGGAGCTTT
66 AGGTCATCCGTAAGCCCTGCAGTGCAGGATGTTT-TCAAAAAGCCTTCGGGAGCTTT
*
1164102 TTGATATTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGCTTTCAAAACCTTC
1 TTGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGCTTTCAAAACCTTC
* *
1164167 GGGTCATCCGTAAGCCCTGCAGTGCAGGATGTTTTCAAAAAGCTTTCGGGAGCTTT
66 AGGTCATCCGTAAGCCCTGCAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTT
* *
1164223 TTGATATTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGCCTTCAAAACCTTC
1 TTGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGCTTTCAAAACCTTC
* * * * *
1164288 AGGTCATCTGTAAGTCCTTCAATGCATGATGTTTTCAAAAA-CCTTCGGG
66 AGGTCATCCGTAAGCCCTGCAGTGCAGGATGTTTTCAAAAAGCCTTCGGG
1164337 TCATCTGTAA
Statistics
Matches: 334, Mismatches: 20, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
120 8 0.02
121 325 0.97
122 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (121 bp):
TTGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGCTTTCAAAACCTTC
AGGTCATCCGTAAGCCCTGCAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTT
Found at i:1164112 original size:76 final size:74
Alignment explanation
Indices: 1164027--1164169 Score: 187
Period size: 76 Copynumber: 1.9 Consensus size: 74
1164017 CTTCAGTGCA
* * *
1164027 TGATGTTTTCAAAACCTTTAGGTCATCCGTAAGCCCTGCAGTGCAGGATGTTTATAAAAAGCCTT
1 TGATATTTTCAAAACCTTCAGGTCATCCGTAAGCCCTGCAGTGCAGGATGCTT-TAAAAA-CCTT
1164092 CGGGAGCTTTT
64 CGGGAGCTTTT
* * * * * *
1164103 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGCTTTCAAAACCTTCG
1 TGATATTTTCAAAACCTTCAGGTCATCCGTAAGCCCTGCAGTGCAGGATGCTTTAAAAACCTTCG
1164168 GG
66 GG
1164170 TCATCCGTAA
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
74 8 0.14
75 5 0.09
76 45 0.78
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.33
Consensus pattern (74 bp):
TGATATTTTCAAAACCTTCAGGTCATCCGTAAGCCCTGCAGTGCAGGATGCTTTAAAAACCTTCG
GGAGCTTTT
Found at i:1164158 original size:45 final size:45
Alignment explanation
Indices: 1164109--1164206 Score: 151
Period size: 45 Copynumber: 2.2 Consensus size: 45
1164099 TTTTTGATAT
* * * *
1164109 TTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGC
1 TTTCAAAACCTTCGGGTCATCCGTAAGCCCTGCAGTGCAGGATGC
*
1164154 TTTCAAAACCTTCGGGTCATCCGTAAGCCCTGCAGTGCAGGATGT
1 TTTCAAAACCTTCGGGTCATCCGTAAGCCCTGCAGTGCAGGATGC
1164199 TTTCAAAA
1 TTTCAAAA
1164207 AGCTTTCGGG
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (45 bp):
TTTCAAAACCTTCGGGTCATCCGTAAGCCCTGCAGTGCAGGATGC
Found at i:1164346 original size:46 final size:45
Alignment explanation
Indices: 1164224--1164371 Score: 224
Period size: 45 Copynumber: 3.3 Consensus size: 45
1164214 GGGAGCTTTT
* *
1164224 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
** * * *
1164269 TGATGCCTTCAAAACCTTCAGGTCATCTGTAAGTCCTTCAATGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1164314 TGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTC-AAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1164360 TGATGTTTTCAA
1 TGATGTTTTCAA
1164372 CATTTCCATC
Statistics
Matches: 90, Mismatches: 12, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
45 48 0.53
46 42 0.47
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
Found at i:1164549 original size:18 final size:18
Alignment explanation
Indices: 1164499--1164537 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
1164489 CATTTTAAAT
* *
1164499 TTAAATTTATTGTTATTA
1 TTAAAATTATTATTATTA
1164517 TTAAAATTATTATTATTA
1 TTAAAATTATTATTATTA
1164535 TTA
1 TTA
1164538 TAATATTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (18 bp):
TTAAAATTATTATTATTA
Found at i:1166327 original size:110 final size:107
Alignment explanation
Indices: 1166213--1166409 Score: 236
Period size: 106 Copynumber: 1.8 Consensus size: 107
1166203 ATGAAAATCC
* * * * *
1166213 TATTTATAAATATAATAT-ATTATTTTTAAATCATTTCAATCATATTCTAATATATATTTATCAA
1 TATTTATAAATAAAAAATAAATATTTTT-AAT-ATATAAAT-ATATT-T-ATATATATTTATCAA
1166277 TATTAAGAAATGA-CAGTCTTAAAGCAACTGGATGTCCATTTTTCGA
61 TATTAAGAAATGAGCAGTCTTAAAGCAACTGGATGTCCATTTTTCGA
* * * * *
1166323 TATTTTTAAATAAAAAATAAATATTTTTAATATATAAATATGTTTTTATATTTTTATTAATATTA
1 TATTTATAAATAAAAAATAAATATTTTTAATATATAAATATATTTATATATATTTATCAATATTA
*
1166388 AGAAATGAGCTGTCTTAAAGCA
66 AGAAATGAGCAGTCTTAAAGCA
1166410 CCTAGAAACT
Statistics
Matches: 74, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
106 25 0.34
107 13 0.18
108 4 0.05
109 6 0.08
110 18 0.24
111 8 0.11
ACGTcount: A:0.41, C:0.08, G:0.07, T:0.44
Consensus pattern (107 bp):
TATTTATAAATAAAAAATAAATATTTTTAATATATAAATATATTTATATATATTTATCAATATTA
AGAAATGAGCAGTCTTAAAGCAACTGGATGTCCATTTTTCGA
Found at i:1166361 original size:17 final size:18
Alignment explanation
Indices: 1166339--1166373 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
1166329 TAAATAAAAA
1166339 ATAAATAT-TTTTAATAT
1 ATAAATATGTTTTAATAT
*
1166356 ATAAATATGTTTTTATAT
1 ATAAATATGTTTTAATAT
1166374 TTTTATTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (18 bp):
ATAAATATGTTTTAATAT
Found at i:1166431 original size:106 final size:106
Alignment explanation
Indices: 1166263--1166460 Score: 244
Period size: 106 Copynumber: 1.9 Consensus size: 106
1166253 CATATTCTAA
* **
1166263 TATATATTTATCAATATTAAGAAATGACAGTCTTAAAGCAACTGGATGTCCATTTTTCGATATTT
1 TATATATTTATCAATATTAAGAAATGACAGTCTTAAAGCAACTGAAACTCCATTTTTCGATATTT
*
1166328 TTAAATAAA-AAATAAATATT-TTTAATATATAAATATGTTTT
66 CTAAATAAATAAAT--ATATTGTTTAATATATAAATATGTTTT
* * * *
1166369 TATATTTTTATTAATATTAAGAAATGAGCTGTCTTAAAGCACCTAGAAACT-C--TTTTCTGATA
1 TATATATTTATCAATATTAAGAAATGA-CAGTCTTAAAGCAACT-GAAACTCCATTTTTC-GATA
1166431 TTTCTAAATAAATAAATATATTGTTTAATA
63 TTTCTAAATAAATAAATATATTGTTTAATA
1166461 AAATATATAT
Statistics
Matches: 79, Mismatches: 8, Indels: 10
0.81 0.08 0.10
Matches are distributed among these distances:
105 10 0.13
106 47 0.59
107 19 0.24
108 3 0.04
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.42
Consensus pattern (106 bp):
TATATATTTATCAATATTAAGAAATGACAGTCTTAAAGCAACTGAAACTCCATTTTTCGATATTT
CTAAATAAATAAATATATTGTTTAATATATAAATATGTTTT
Found at i:1191245 original size:22 final size:22
Alignment explanation
Indices: 1191159--1191247 Score: 92
Period size: 22 Copynumber: 4.1 Consensus size: 22
1191149 TTTTATATAC
* **
1191159 AGTATCGATACATTTGTC-ATT
1 AGTATCGATACATGTGTCAAAA
*
1191180 GGTATCGATACATGTGTCAAAA
1 AGTATCGATACATGTGTCAAAA
* *
1191202 AATATCGATATATGTGTCAAAA
1 AGTATCGATACATGTGTCAAAA
* *
1191224 CGTATCGATACATGT-ACAAAA
1 AGTATCGATACATGTGTCAAAA
1191245 AGT
1 AGT
1191248 TGTGATACTT
Statistics
Matches: 55, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
21 23 0.42
22 32 0.58
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.31
Consensus pattern (22 bp):
AGTATCGATACATGTGTCAAAA
Found at i:1195331 original size:20 final size:20
Alignment explanation
Indices: 1195306--1195346 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
1195296 TATTTTGGTT
*
1195306 CTACACCAAGGAGTTCAAGC
1 CTACACCAAGGAATTCAAGC
1195326 CTACACCAAGGAATTCAAGC
1 CTACACCAAGGAATTCAAGC
1195346 C
1 C
1195347 AACCTCAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.37, C:0.32, G:0.17, T:0.15
Consensus pattern (20 bp):
CTACACCAAGGAATTCAAGC
Found at i:1196229 original size:200 final size:200
Alignment explanation
Indices: 1195867--1197201 Score: 1847
Period size: 200 Copynumber: 6.7 Consensus size: 200
1195857 AAACACGCGT
* * * * * * * * *
1195867 AATTTAAAAA-ATGTCGATACATTATGTTTACATATTCTCTCATAAAATCAGTATATTTTTACCA
1 AATTTAAAAAGGTATCGATACATTATGTTGACCTATTTTCTAATTAAACCAGTATATTTTTACCG
* * * *
1195931 GTTACATTGTTAATTTTCCTATTACATTATAATTATCAGTTTCGATGTTTTTTGGGATCGATACT
66 GTTACATTGTAAATTTACCTATTACTTTATAATTATCGGTTTCGATG-TTTTTGGGATCGATACT
* * * *
1195996 TATAATAAATTTATCGACACTTCATGCGTGCACCTTGTTGGGCATTCATTCTGGATCAAAAGTAT
130 TATAATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTCTGGACCAAAAGTAT
*
1196061 CGACGC
195 CGACAC
*
1196067 AATTTAAAAAGGTATTGATACATTATGTTGACCTATTTTCTAATTAAACCAGTATATTTTTACCG
1 AATTTAAAAAGGTATCGATACATTATGTTGACCTATTTTCTAATTAAACCAGTATATTTTTACCG
*
1196132 GTTACATTGTAAATTTACCTATTACTTTAT-ATATATCGGTTTCGATGTTTTTGGGATTGATACT
66 GTTACATTGTAAATTTACCTATTACTTTATAAT-TATCGGTTTCGATGTTTTTGGGATCGATACT
1196196 TATAATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTCTGGACCAAAAGTAT
130 TATAATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTCTGGACCAAAAGTAT
1196261 CGACAC
195 CGACAC
* * * * *
1196267 AATTTAAAAAGGTATCGATACATTATGTTGGCCTATTTCCTAATTAAACCAGTATAATTTTATCA
1 AATTTAAAAAGGTATCGATACATTATGTTGACCTATTTTCTAATTAAACCAGTATATTTTTACCG
*
1196332 GTTACATTGTAAATTTACCTATTACTTTAT-ATATATCAGTTTCGATGTTTTTGGGATCGATACT
66 GTTACATTGTAAATTTACCTATTACTTTATAAT-TATCGGTTTCGATGTTTTTGGGATCGATACT
*** *
1196396 TATAATAAATGTATCGACACTTTATATATGCACCTCGTTGGGCATTCATTCTGGACTAAAAGTAT
130 TATAATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTCTGGACCAAAAGTAT
*
1196461 TGACAC
195 CGACAC
* * **
1196467 AATTTTAAAAGGTATCGATACATTATGTTGACCTATTTTTTAATTAAACTGGTATATTTTTACCG
1 AATTTAAAAAGGTATCGATACATTATGTTGACCTATTTTCTAATTAAACCAGTATATTTTTACCG
1196532 GTTACATTGTAAATTTACCTATTAC-TT-T-A-TATCGGTTTCGATGTTTTTGGGATCGATACTT
66 GTTACATTGTAAATTTACCTATTACTTTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTT
* **
1196593 ATAATAAATGTATCGACACTTTATGCGTGTA-CTCGTTGGGCATTCATTCTATACCAAAAGTATC
131 ATAATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTCTGGACCAAAAGTATC
*
1196657 GATAC
196 GACAC
* * * ** *
1196662 AATTTTAAAAGGTATCGATACATTATGTTGATCTATTTTCTAATAAAACTTGTATATTTTTACTG
1 AATTTAAAAAGGTATCGATACATTATGTTGACCTATTTTCTAATTAAACCAGTATATTTTTACCG
*
1196727 GTTACATTGTAAATTTACCTATTACTTTATAATTATCGATTTCGATGTTTTTGGGATCGATACTT
66 GTTACATTGTAAATTTACCTATTACTTTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTT
** * * * *
1196792 ATAATAAATGTATCGACACTTTATTTGTGCACCTCGTTGGACATTCATTTTTGACTAAAAGTATC
131 ATAATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTCTGGACCAAAAGTATC
1196857 GACAC
196 GACAC
* * * * *
1196862 AATTTTAAAAGGTATCGATACATTATGCTAACCTATTTTCTAA-TAAAACATGTATATTTTTACT
1 AATTTAAAAAGGTATCGATACATTATGTTGACCTATTTTCTAATTAAACCA-GTATATTTTTACC
* * * *
1196926 GGTTACATTGTAAATTTACCTATCACTTTATAATTATCAGTTTCGGTGTTTTTGGGATTGATACT
65 GGTTACATTGTAAATTTACCTATTACTTTATAATTATCGGTTTCGATGTTTTTGGGATCGATACT
* * *
1196991 TACAATAAAAGTATCGACACTTTATGCGAGCA---C---GGGCATTCATTCTGGACCAAAAGTAT
130 TATAATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTCTGGACCAAAAGTAT
1197050 CGACAC
195 CGACAC
* * * * *
1197056 AATTTTAAAAA-GTATCGATACATTATGTTGACATATTCTCTCATAAAACCAGTATATTTTTATC
1 AA-TTTAAAAAGGTATCGATACATTATGTTGACCTATTTTCTAATTAAACCAGTATATTTTTACC
* ** *
1197120 GATTGTATTGTAAATTTACCTATTACTTTATAATTATCGGTTTTGATGTTTTTGGGATCGATACT
65 GGTTACATTGTAAATTTACCTATTACTTTATAATTATCGGTTTCGATGTTTTTGGGATCGATACT
*
1197185 TACAATAAATGTATCGA
130 TATAATAAATGTATCGA
1197202 TACCTCAAGT
Statistics
Matches: 1018, Mismatches: 107, Indels: 26
0.88 0.09 0.02
Matches are distributed among these distances:
194 141 0.14
195 130 0.13
196 60 0.06
197 2 0.00
198 3 0.00
199 64 0.06
200 534 0.52
201 84 0.08
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.41
Consensus pattern (200 bp):
AATTTAAAAAGGTATCGATACATTATGTTGACCTATTTTCTAATTAAACCAGTATATTTTTACCG
GTTACATTGTAAATTTACCTATTACTTTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTT
ATAATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTCTGGACCAAAAGTATC
GACAC
Found at i:1196805 original size:395 final size:395
Alignment explanation
Indices: 1195880--1197201 Score: 1905
Period size: 395 Copynumber: 3.3 Consensus size: 395
1195870 TTAAAAAATG
* * * * *
1195880 TCGATACATTATGTTTACATATTCTCTCATAAAATCAGTATATTTTTACCAGTTACATTGTTAAT
1 TCGATACATTATGTTGACATATTCTCTAATAAAACCAGTATATTTTTATCAGTTACATTGTAAAT
* * *
1195945 TTTCCTATTACATTATAATTATCAGTTTCGATGTTTTTTGGGATCGATACTTATAATAAATTTAT
66 TTACCTATTACTTTATAATTATCAGTTTCGATG-TTTTTGGGATCGATACTTATAATAAATGTAT
* ** * * *
1196010 CGACACTTCATGCGTGCACCTTGTTGGGCATTCATTCTGGA-TCAAAAGTATCGACGCAATTTAA
130 CGACACTTTATATGTGCACCTCGTTGGGCATTCATTCTGGACT-AAAAGTATCGACACAATTTTA
* *
1196074 AAAGGTATTGATACATTATGTTGACCTATTTTCTAATTAAACCAGTATATTTTTACCGGTTACAT
194 AAAGGTATCGATACATTATGTTGACCTATTTTCTAATTAAA-CTGTATATTTTTACCGGTTACAT
1196139 TGTAAATTTACCTATTACTTTATATATATCGGTTTCGATGTTTTTGGGATTGATACTTATAATAA
258 TGTAAATTTACCTATTAC-TT-TATATATCGGTTTCGATGTTTTTGGGATTGATACTTATAATAA
1196204 ATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTCTGGACCAAAAGTATCGACACAA
321 ATGTATCGACACTTTATGCGTG-A-CTCGTTGGGCATTCATTCTGGACCAAAAGTATCGACACAA
*
1196269 TTTAAAAAGGTA
384 TTTTAAAAGGTA
* * * *
1196281 TCGATACATTATGTTGGCCTATT-TCCTAATTAAACCAGTATAATTTTATCAGTTACATTGTAAA
1 TCGATACATTATGTTGACATATTCT-CTAATAAAACCAGTATATTTTTATCAGTTACATTGTAAA
1196345 TTTACCTATTACTTTAT-ATATATCAGTTTCGATGTTTTTGGGATCGATACTTATAATAAATGTA
65 TTTACCTATTACTTTATAAT-TATCAGTTTCGATGTTTTTGGGATCGATACTTATAATAAATGTA
* *
1196409 TCGACACTTTATATATGCACCTCGTTGGGCATTCATTCTGGACTAAAAGTATTGACACAATTTTA
129 TCGACACTTTATATGTGCACCTCGTTGGGCATTCATTCTGGACTAAAAGTATCGACACAATTTTA
*
1196474 AAAGGTATCGATACATTATGTTGACCTATTTTTTAATTAAACTGGTATATTTTTACCGGTTACAT
194 AAAGGTATCGATACATTATGTTGACCTATTTTCTAATTAAACT-GTATATTTTTACCGGTTACAT
*
1196539 TGTAAATTTACCTATTAC-TT-TATATCGGTTTCGATGTTTTTGGGATCGATACTTATAATAAAT
258 TGTAAATTTACCTATTACTTTATATATCGGTTTCGATGTTTTTGGGATTGATACTTATAATAAAT
** *
1196602 GTATCGACACTTTATGCGTGTACTCGTTGGGCATTCATTCTATACCAAAAGTATCGATACAATTT
323 GTATCGACACTTTATGCGTG-ACTCGTTGGGCATTCATTCTGGACCAAAAGTATCGACACAATTT
1196667 TAAAAGGTA
387 TAAAAGGTA
* ** *
1196676 TCGATACATTATGTTGATC-TATTTTCTAATAAAACTTGTATATTTTTA-CTGGTTACATTGTAA
1 TCGATACATTATGTTGA-CATATTCTCTAATAAAACCAGTATATTTTTATC-AGTTACATTGTAA
1196739 ATTTACCTATTACTTTATAATTATC-GATTTCGATGTTTTTGGGATCGATACTTATAATAAATGT
64 ATTTACCTATTACTTTATAATTATCAG-TTTCGATGTTTTTGGGATCGATACTTATAATAAATGT
* * * *
1196803 ATCGACACTTTATTTGTGCACCTCGTTGGACATTCATTTTTGACTAAAAGTATCGACACAATTTT
128 ATCGACACTTTATATGTGCACCTCGTTGGGCATTCATTCTGGACTAAAAGTATCGACACAATTTT
* * * *
1196868 AAAAGGTATCGATACATTATGCTAACCTATTTTCTAATAAAACATGTATATTTTTACTGGTTACA
193 AAAAGGTATCGATACATTATGTTGACCTATTTTCTAATTAAAC-TGTATATTTTTACCGGTTACA
* * * *
1196933 TTGTAAATTTACCTATCACTTTATAATTATCAGTTTCGGTGTTTTTGGGATTGATACTTACAATA
257 TTGTAAATTTACCTATTACTTTAT-A-TATCGGTTTCGATGTTTTTGGGATTGATACTTATAATA
* * *
1196998 AAAGTATCGACACTTTATGCGAG-CAC---GGGCATTCATTCTGGACCAAAAGTATCGACACAAT
320 AATGTATCGACACTTTATGCGTGACTCGTTGGGCATTCATTCTGGACCAAAAGTATCGACACAAT
*
1197059 TTTAAAAAGTA
385 TTTAAAAGGTA
* **
1197070 TCGATACATTATGTTGACATATTCTCTCATAAAACCAGTATATTTTTATC-GATTGTATTGTAAA
1 TCGATACATTATGTTGACATATTCTCTAATAAAACCAGTATATTTTTATCAG-TTACATTGTAAA
* * *
1197134 TTTACCTATTACTTTATAATTATCGGTTTTGATGTTTTTGGGATCGATACTTACAATAAATGTAT
65 TTTACCTATTACTTTATAATTATCAGTTTCGATGTTTTTGGGATCGATACTTATAATAAATGTAT
1197199 CGA
130 CGA
1197202 TACCTCAAGT
Statistics
Matches: 837, Mismatches: 66, Indels: 43
0.88 0.07 0.05
Matches are distributed among these distances:
393 2 0.00
394 160 0.19
395 295 0.35
396 70 0.08
397 4 0.00
398 2 0.00
399 56 0.07
400 165 0.20
401 83 0.10
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.41
Consensus pattern (395 bp):
TCGATACATTATGTTGACATATTCTCTAATAAAACCAGTATATTTTTATCAGTTACATTGTAAAT
TTACCTATTACTTTATAATTATCAGTTTCGATGTTTTTGGGATCGATACTTATAATAAATGTATC
GACACTTTATATGTGCACCTCGTTGGGCATTCATTCTGGACTAAAAGTATCGACACAATTTTAAA
AGGTATCGATACATTATGTTGACCTATTTTCTAATTAAACTGTATATTTTTACCGGTTACATTGT
AAATTTACCTATTACTTTATATATCGGTTTCGATGTTTTTGGGATTGATACTTATAATAAATGTA
TCGACACTTTATGCGTGACTCGTTGGGCATTCATTCTGGACCAAAAGTATCGACACAATTTTAAA
AGGTA
Found at i:1208366 original size:302 final size:300
Alignment explanation
Indices: 1207820--1208424 Score: 1142
Period size: 302 Copynumber: 2.0 Consensus size: 300
1207810 TCAAAGTATC
1207820 GATACATTCAACATATGGTAGTGCTTTACCGATTTGTCATAATGAAACTGATTTTGTCATATTTT
1 GATACATTCAACATATGGTAGTGCTTTACC-ATTTGTCATAATGAAACTGATTTTGTCATATTTT
1207885 TACTTTTTATATTGTTATGTATCGATACATTTTTATAAAGTATCGATACTTTATAGGCGCTATTA
65 TAC-TTTTATATTGTTATGTATCGATACATTTTTATAAAGTATCGATACTTTATAGGCGCTATTA
1207950 CTGCTTCTTTTCAATTCCCAAAGTGTCGATACTTATTTAAATAGAATCGATACTTTCAATATATC
129 CTGCTTCTTTTCAATTCCCAAAGTGTCGATACTTATTTAAATAGAATCGATACTTTCAATATATC
1208015 CGATAGCGCTTTACTGGTTTTATCATTATGAAACCGGTTTTATCATATTTTCACATGTTATATTG
194 CGATAGCGCTTTACTGGTTTTATCATTATGAAACCGGTTTTATCATATTTTCACATGTTATATTG
1208080 TTATGTATCGATACCTTTTTATAAAGTATCGATACTTTATAG
259 TTATGTATCGATACCTTTTTATAAAGTATCGATACTTTATAG
1208122 GATACATTCAACATATATGGTAGTGCTTTACC-TTTGTCATAATGAAACTGATTTTGTCATATTT
1 GATACATTCAAC--ATATGGTAGTGCTTTACCATTTGTCATAATGAAACTGATTTTGTCATATTT
1208186 TTA-TTTTATATTGTTATGTATCGATACATTTTTATAAAGTATCGATACTTTATAGGCGCTATTA
64 TTACTTTTATATTGTTATGTATCGATACATTTTTATAAAGTATCGATACTTTATAGGCGCTATTA
1208250 CTGCTATTCTTTTCAATTCCCAAAGTGTCGATACTTATTTAAATAGAATCGATACTTTCAATATA
129 CTGC--TTCTTTTCAATTCCCAAAGTGTCGATACTTATTTAAATAGAATCGATACTTTCAATATA
1208315 TCCGATAGCGCTTTACTGGTTTTATCATTATGAAACCGGTTTTATCATATTTTCACATGTTATAT
192 TCCGATAGCGCTTTACTGGTTTTATCATTATGAAACCGGTTTTATCATATTTTCACATGTTATAT
1208380 TGTTATGTATCGATACCTTTTTATAAAGTATCGATACTTTATAG
257 TGTTATGTATCGATACCTTTTTATAAAGTATCGATACTTTATAG
1208424 G
1 G
1208425 CGCTATTACT
Statistics
Matches: 299, Mismatches: 0, Indels: 8
0.97 0.00 0.03
Matches are distributed among these distances:
300 65 0.22
302 216 0.72
304 18 0.06
ACGTcount: A:0.29, C:0.14, G:0.13, T:0.44
Consensus pattern (300 bp):
GATACATTCAACATATGGTAGTGCTTTACCATTTGTCATAATGAAACTGATTTTGTCATATTTTT
ACTTTTATATTGTTATGTATCGATACATTTTTATAAAGTATCGATACTTTATAGGCGCTATTACT
GCTTCTTTTCAATTCCCAAAGTGTCGATACTTATTTAAATAGAATCGATACTTTCAATATATCCG
ATAGCGCTTTACTGGTTTTATCATTATGAAACCGGTTTTATCATATTTTCACATGTTATATTGTT
ATGTATCGATACCTTTTTATAAAGTATCGATACTTTATAG
Found at i:1208585 original size:180 final size:180
Alignment explanation
Indices: 1208122--1208761 Score: 842
Period size: 181 Copynumber: 3.5 Consensus size: 180
1208112 TACTTTATAG
* ** * * *
1208122 GATACATTCAACATATATGGTAGTGCTTTACC--TTTGTCATAATGAAACTGATTTTGTCATATT
1 GATACTTTCAACATATCCGGTAG-GCTTTACCGGTTTGTCATTATGAAACCGATTTTATCATATT
*
1208185 TTTA--TTTTATATTGTTATGTATCGATACATTTTTATAAAGTATCGATACTTTATAGGCGCTAT
65 TTTACCTGTTATATTGTTATGTATCGATACATTTTTATAAAGTATCGATACTTTATAGGCGCTAT
* * *
1208248 TACTGCTATTCTTTTCAATTCCCAAAGTGTCGATACTTATTTAAATAGAATC
130 TACTGCT-TTCTTTTAAATTCCAAAAGTGTCGATACTTATTTAAATGGAATC
* * * * *
1208300 GATACTTTCAATATATCCGATAGCGCTTTACTGGTTTTATCATTATGAAACCGGTTTTATCATAT
1 GATACTTTCAACATATCCGGTAG-GCTTTACCGG-TTTGTCATTATGAAACCGATTTTATCATAT
* * *
1208365 TTTCACATGTTATATTGTTATGTATCGATACCTTTTTATAAAGTATCGATACTTTATAGGCGCTA
64 TTTTACCTGTTATATTGTTATGTATCGATACATTTTTATAAAGTATCGATACTTTATAGGCGCTA
*
1208430 TTACTACTTTCTTTTAAATTCCAAAAGTGTCGATACTTATTTAAATGGAATC
129 TTACTGCTTTCTTTTAAATTCCAAAAGTGTCGATACTTATTTAAATGGAATC
* * *
1208482 GATACTTTTAACATAACCGGTAGGTCTTTACCGG-TTGTCATTATGAAACCGGTTTTATCATATT
1 GATACTTTCAACATATCCGGTAGG-CTTTACCGGTTTGTCATTATGAAACCGATTTTATCATATT
* * *
1208546 TTTACCTGTTATATTGTTATGTATCGATACATGTTTATAAAGTATCAATACTTTATAGGCTCTAT
65 TTTACCTGTTATATTGTTATGTATCGATACATTTTTATAAAGTATCGATACTTTATAGGCGCTAT
* *
1208611 TCCTGCTTTTCTTTTAAATTCCAAAAGTGTCGATACTTATTTCAATGGAATC
130 TACTGC-TTTCTTTTAAATTCCAAAAGTGTCGATACTTATTTAAATGGAATC
* * * *
1208663 GATACTTTCAACATATCCGGTAGCACTTTACCGGTTTTGTCA-TATTGAACCCCATTTTCTCATT
1 GATACTTTCAACATATCCGGTAG-GCTTTACCGG-TTTGTCATTA-TGAAACCGATTTTATCA-T
* * *
1208727 TTTTTTACCTGATATATTATTATGTATCGATACAT
62 ATTTTTACCTGTTATATTGTTATGTATCGATACAT
1208762 ATCTTAATAA
Statistics
Matches: 406, Mismatches: 44, Indels: 18
0.87 0.09 0.04
Matches are distributed among these distances:
178 25 0.06
180 92 0.23
181 104 0.26
182 70 0.17
183 82 0.20
184 33 0.08
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.43
Consensus pattern (180 bp):
GATACTTTCAACATATCCGGTAGGCTTTACCGGTTTGTCATTATGAAACCGATTTTATCATATTT
TTACCTGTTATATTGTTATGTATCGATACATTTTTATAAAGTATCGATACTTTATAGGCGCTATT
ACTGCTTTCTTTTAAATTCCAAAAGTGTCGATACTTATTTAAATGGAATC
Found at i:1208951 original size:12 final size:11
Alignment explanation
Indices: 1208922--1208951 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
1208912 TTCCGGTAAC
1208922 ACCGTATATTA
1 ACCGTATATTA
1208933 ACCGTATATTA
1 ACCGTATATTA
1208944 ATCCGTAT
1 A-CCGTAT
1208952 TTCTAGAGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.67
12 6 0.33
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (11 bp):
ACCGTATATTA
Found at i:1217876 original size:20 final size:18
Alignment explanation
Indices: 1217833--1217874 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
1217823 ATACATAAAG
1217833 TATAATATATTTTATATT
1 TATAATATATTTTATATT
1217851 TATAATATATTTTATATT
1 TATAATATATTTTATATT
1217869 TA-AATA
1 TATAATA
1217875 ATTAAAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 4 0.17
18 20 0.83
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TATAATATATTTTATATT
Found at i:1224276 original size:35 final size:35
Alignment explanation
Indices: 1224209--1224276 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
1224199 TACTCGAACC
* * *
1224209 AAATATCTTTTAATATATAAATTTATATAGATAAT
1 AAATATATTTTAATATATAAATTTAAACAGATAAT
*
1224244 AAATATATTTTAATTTA-AAATATTAAACAGATA
1 AAATATATTTTAATATATAAAT-TTAAACAGATA
1224277 TACACTCCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 4 0.14
35 24 0.86
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (35 bp):
AAATATATTTTAATATATAAATTTAAACAGATAAT
Found at i:1225583 original size:17 final size:17
Alignment explanation
Indices: 1225557--1225589 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1225547 CCGCCATGCA
*
1225557 TGTTTTGAATGAACTGG
1 TGTTTGGAATGAACTGG
1225574 TGTTTGGAATGAACTG
1 TGTTTGGAATGAACTG
1225590 ATTAAATCGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.06, G:0.30, T:0.39
Consensus pattern (17 bp):
TGTTTGGAATGAACTGG
Found at i:1226632 original size:31 final size:30
Alignment explanation
Indices: 1226560--1226634 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 30
1226550 AGAAGTAATC
*
1226560 TTTTTTGGTCAAGATAGATACATAAAGTGT
1 TTTTTTGGTCAAAATAGATACATAAAGTGT
* * **
1226590 TTTTTGGGTCAAAATAGATACCTACTGTGTT
1 TTTTTTGGTCAAAATAGATACATAAAGTG-T
*
1226621 TTTTTTTGTCAAAA
1 TTTTTTGGTCAAAA
1226635 CAAATTCCTA
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
30 24 0.65
31 13 0.35
ACGTcount: A:0.29, C:0.09, G:0.17, T:0.44
Consensus pattern (30 bp):
TTTTTTGGTCAAAATAGATACATAAAGTGT
Found at i:1227292 original size:32 final size:32
Alignment explanation
Indices: 1227256--1227316 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
1227246 ATAGGTTTTA
*
1227256 TGAAT-GTCGCGTCCTACGGAACGCGCCTCCCT
1 TGAATGGT-GCGTCATACGGAACGCGCCTCCCT
* *
1227288 TGAATGGTGTGTCATACGGAACGTGCCTC
1 TGAATGGTGCGTCATACGGAACGCGCCTC
1227317 TTATGCCTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
32 23 0.92
33 2 0.08
ACGTcount: A:0.18, C:0.30, G:0.28, T:0.25
Consensus pattern (32 bp):
TGAATGGTGCGTCATACGGAACGCGCCTCCCT
Found at i:1228123 original size:34 final size:34
Alignment explanation
Indices: 1228075--1228143 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
1228065 ATGAAAGAGT
*
1228075 TAGATTCAACCCCTTAAAAAGGTCATGGCATTTC
1 TAGATTCAACCCCTTAAAAAGGTCATGACATTTC
* * * *
1228109 TAGATTCAATCCCTTACAGAGGTCGTGACATTTC
1 TAGATTCAACCCCTTAAAAAGGTCATGACATTTC
1228143 T
1 T
1228144 GTGACCTTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (34 bp):
TAGATTCAACCCCTTAAAAAGGTCATGACATTTC
Found at i:1230960 original size:13 final size:13
Alignment explanation
Indices: 1230942--1230967 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1230932 TAAGGTGAGT
1230942 GTATATGATTATA
1 GTATATGATTATA
1230955 GTATATGATTATA
1 GTATATGATTATA
1230968 TGGAAATTAG
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:0.00, G:0.15, T:0.46
Consensus pattern (13 bp):
GTATATGATTATA
Found at i:1231560 original size:18 final size:18
Alignment explanation
Indices: 1231537--1231588 Score: 104
Period size: 18 Copynumber: 2.9 Consensus size: 18
1231527 GTGTCTACGC
1231537 GGTCCTTCGGGACATAGT
1 GGTCCTTCGGGACATAGT
1231555 GGTCCTTCGGGACATAGT
1 GGTCCTTCGGGACATAGT
1231573 GGTCCTTCGGGACATA
1 GGTCCTTCGGGACATA
1231589 TGTGTTATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.17, C:0.23, G:0.33, T:0.27
Consensus pattern (18 bp):
GGTCCTTCGGGACATAGT
Found at i:1232406 original size:16 final size:17
Alignment explanation
Indices: 1232379--1232412 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
1232369 TTACTCATTA
1232379 TTTTATAAAAGTAAATG
1 TTTTATAAAAGTAAATG
*
1232396 TTTTA-AAAAGTCAATG
1 TTTTATAAAAGTAAATG
1232412 T
1 T
1232413 GACAGCTCGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.44, C:0.03, G:0.12, T:0.41
Consensus pattern (17 bp):
TTTTATAAAAGTAAATG
Found at i:1233854 original size:331 final size:332
Alignment explanation
Indices: 1233235--1233921 Score: 884
Period size: 331 Copynumber: 2.1 Consensus size: 332
1233225 TTTCGGATAA
* ** * * * *
1233235 GATAGAACACTATGAAATGACAAAGATTCTCTGAATAATAATGGAAAATGCTTTCCCTGGAACGC
1 GATAGAACACTATGACATGGTAGATATTCTCTGAATAATAATAGAAAATGCTTCCCCTGGAACGC
* * *
1233300 GCCTTTCATTTCGGATAGGATAGAACACTATGACATGGCAGAGATTCTCTGAATAATAATTGAAA
66 ACATTTCATTTCGGATAGGATAGAACACTATGACATGGCAGAGATTCTCTAAATAATAATTGAAA
* * * * *
1233365 ATGCTTCCCCTAGGACGCGCATTTCATTTTAGATGAGATGAAACACTATGATATGGCAAAGATTC
131 ACGCTTCCCCTAGAACGCGCATTTCATTTCAGATGAGATGAAACACCATGACATGGCAAAGATTC
* * * *
1233430 TTTGAATAATAACGGAAAACGCTTCCCCTAGGACGCGCATTTCATTTTAGATGAGATAAAACACT
196 TCTGAATAATAACAGAAAACGCTTCCCCTAGAACGCGCATTTCATTTCAGATGAGATAAAACACT
* * * *
1233495 ATGATATGGCAAAGATTTTTTGAATAATAACAGAAAAC-GCTTCCCCTGGAACGCACCTTTCATT
261 ATGACATGACAAAGATTCTTTAAATAATAACAGAAAACAG-TTCCCCTGGAACGCACCTTTCATT
*
1233559 TTAGATGG
325 TCAGATGG
1233567 GAT-GAAACACTATGACATGGTAGATATTCTCTGAATAATAATAGAAAATGCTTCCCCTGGAACG
1 GATAG-AACACTATGACATGGTAGATATTCTCTGAATAATAATAGAAAATGCTTCCCCTGGAACG
* * * * *
1233631 TACATTTCATTTTGGATGGGATATAACAC-ATGACATGGCAGATATTCTCTAAATAATAATAT-A
65 CACATTTCATTTCGGATAGGATAGAACACTATGACATGGCAGAGATTCTCTAAATAATAAT-TGA
* * * *
1233694 AAACGTTTCTCCTAGAATGCGTC-TTTCATTTCAGAT-AGGATGAAACACCATGACATGGCAGAG
129 AAACGCTTCCCCTAGAACGCG-CATTTCATTTCAGATGA-GATGAAACACCATGACATGGCAAAG
* * * * *
1233757 ATTCTCTGAATAATAATAGAAAACGCTTCCCCTAGAACGCGCCTCTT-ATTTCGGATGGGATGAA
192 ATTCTCTGAATAATAACAGAAAACGCTTCCCCTAGAACGCGCAT-TTCATTTCAGATGAGATAAA
* ** *
1233821 ACACTATGACATGACAGAGATTCTTTAAATAATAATGGAAAACAGTTCCCCTGGAATGCACCTTT
256 ACACTATGACATGACAAAGATTCTTTAAATAATAACAGAAAACAGTTCCCCTGGAACGCACCTTT
*
1233886 CATTTCGGATGG
321 CATTTCAGATGG
1233898 GATAGAACACTATGACATGGTAGA
1 GATAGAACACTATGACATGGTAGA
1233922 GATTTTTTTA
Statistics
Matches: 305, Mismatches: 43, Indels: 15
0.84 0.12 0.04
Matches are distributed among these distances:
330 1 0.00
331 220 0.72
332 84 0.28
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (332 bp):
GATAGAACACTATGACATGGTAGATATTCTCTGAATAATAATAGAAAATGCTTCCCCTGGAACGC
ACATTTCATTTCGGATAGGATAGAACACTATGACATGGCAGAGATTCTCTAAATAATAATTGAAA
ACGCTTCCCCTAGAACGCGCATTTCATTTCAGATGAGATGAAACACCATGACATGGCAAAGATTC
TCTGAATAATAACAGAAAACGCTTCCCCTAGAACGCGCATTTCATTTCAGATGAGATAAAACACT
ATGACATGACAAAGATTCTTTAAATAATAACAGAAAACAGTTCCCCTGGAACGCACCTTTCATTT
CAGATGG
Found at i:1233936 original size:83 final size:83
Alignment explanation
Indices: 1233224--1233925 Score: 729
Period size: 83 Copynumber: 8.5 Consensus size: 83
1233214 TGTGCCTCTT
** * * * * * *
1233224 ATTTCGGATAAGATAGAACACTATGAAATGACAAAGATTCTCTGAATAATAATGGAAAATGCTTT
1 ATTTCGGATGGGATAGAACACTATGACATGGCAGAGATTCTCTGAATAATAATAGAAAACGCTTC
1233289 CCCTGGAACGCGCCTTTC
66 CCCTGGAACGCGCCTTTC
* * *
1233307 ATTTCGGATAGGATAGAACACTATGACATGGCAGAGATTCTCTGAATAATAATTGAAAATGCTTC
1 ATTTCGGATGGGATAGAACACTATGACATGGCAGAGATTCTCTGAATAATAATAGAAAACGCTTC
*
1233372 CCCTAGG-ACGCGCATTTC
66 CCCT-GGAACGCGCCTTTC
** * * * * **
1233390 ATTTTAGATGAGAT-GAAACACTATGATATGGCAAAGATTCTTTGAATAATAACGGAAAACGCTT
1 ATTTCGGATGGGATAG-AACACTATGACATGGCAGAGATTCTCTGAATAATAATAGAAAACGCTT
*
1233454 CCCCTAGG-ACGCGCATTTC
65 CCCCT-GGAACGCGCCTTTC
** * * * * * * *
1233473 ATTTTAGATGAGATAAAACACTATGATATGGCAAAGATTTTTTGAATAATAACAGAAAACGCTTC
1 ATTTCGGATGGGATAGAACACTATGACATGGCAGAGATTCTCTGAATAATAATAGAAAACGCTTC
*
1233538 CCCTGGAACGCACCTTTC
66 CCCTGGAACGCGCCTTTC
** * * *
1233556 ATTTTAGATGGGAT-GAAACACTATGACATGGTAGATATTCTCTGAATAATAATAGAAAATGCTT
1 ATTTCGGATGGGATAG-AACACTATGACATGGCAGAGATTCTCTGAATAATAATAGAAAACGCTT
** *
1233620 CCCCTGGAACGTACATTTC
65 CCCCTGGAACGCGCCTTTC
* * * * * *
1233639 ATTTTGGATGGGATATAACAC-ATGACATGGCAGATATTCTCTAAATAATAATATAAAACGTTTC
1 ATTTCGGATGGGATAGAACACTATGACATGGCAGAGATTCTCTGAATAATAATAGAAAACGCTTC
* * * *
1233703 TCCTAGAATGCGTCTTTC
66 CCCTGGAACGCGCCTTTC
* * *
1233721 ATTTCAGATAGGAT-GAAACACCATGACATGGCAGAGATTCTCTGAATAATAATAGAAAACGCTT
1 ATTTCGGATGGGATAG-AACACTATGACATGGCAGAGATTCTCTGAATAATAATAGAAAACGCTT
*
1233785 CCCCTAGAACGCGCCTCTT-
65 CCCCTGGAACGCGCCT-TTC
* * * *
1233804 ATTTCGGATGGGAT-GAAACACTATGACATGACAGAGATTCTTTAAATAATAATGGAAAACAG-T
1 ATTTCGGATGGGATAG-AACACTATGACATGGCAGAGATTCTCTGAATAATAATAGAAAAC-GCT
* *
1233867 TCCCCTGGAATGCACCTTTC
64 TCCCCTGGAACGCGCCTTTC
*
1233887 ATTTCGGATGGGATAGAACACTATGACATGGTAGAGATT
1 ATTTCGGATGGGATAGAACACTATGACATGGCAGAGATT
1233926 TTTTTAATAA
Statistics
Matches: 536, Mismatches: 71, Indels: 24
0.85 0.11 0.04
Matches are distributed among these distances:
82 70 0.13
83 460 0.86
84 6 0.01
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.29
Consensus pattern (83 bp):
ATTTCGGATGGGATAGAACACTATGACATGGCAGAGATTCTCTGAATAATAATAGAAAACGCTTC
CCCTGGAACGCGCCTTTC
Found at i:1234966 original size:32 final size:32
Alignment explanation
Indices: 1234920--1234991 Score: 99
Period size: 32 Copynumber: 2.2 Consensus size: 32
1234910 TCTTTCACAG
* * *
1234920 ACCTTAAACAGTAAATAAAATCATACACATAC
1 ACCTAAAATAGTAAATAAAAGCATACACATAC
* *
1234952 ACTTAAAATAGTAAATAAAAGCATATACATAC
1 ACCTAAAATAGTAAATAAAAGCATACACATAC
1234984 ACCTAAAA
1 ACCTAAAA
1234992 CAGACTTTTC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.56, C:0.18, G:0.04, T:0.22
Consensus pattern (32 bp):
ACCTAAAATAGTAAATAAAAGCATACACATAC
Found at i:1238128 original size:15 final size:16
Alignment explanation
Indices: 1238108--1238137 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1238098 AATTAATTAA
1238108 TTTAAT-AATAAAAAT
1 TTTAATGAATAAAAAT
1238123 TTTAATGAATAAAAA
1 TTTAATGAATAAAAA
1238138 ATAAATTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (16 bp):
TTTAATGAATAAAAAT
Found at i:1240670 original size:12 final size:13
Alignment explanation
Indices: 1240589--1240681 Score: 59
Period size: 15 Copynumber: 6.8 Consensus size: 13
1240579 AACCACGAGT
1240589 AAAATAAAAAATA
1 AAAATAAAAAATA
*
1240602 AATAGATAAATTAAATG
1 AA-A-ATAAA--AAATA
*
1240619 AATATAAAAGGAA-A
1 AAAATAAAA--AATA
1240633 AAAATAAAGAAGATA
1 AAAATAAA-AA-ATA
*
1240648 AGAAT--AAAAT-
1 AAAATAAAAAATA
1240658 AAAATAAAAAATA
1 AAAATAAAAAATA
1240671 AAAATAAAAAA
1 AAAATAAAAAA
1240682 GGAATATGAT
Statistics
Matches: 62, Mismatches: 6, Indels: 24
0.67 0.07 0.26
Matches are distributed among these distances:
10 4 0.06
11 2 0.03
12 7 0.11
13 16 0.26
14 9 0.15
15 18 0.29
17 6 0.10
ACGTcount: A:0.75, C:0.00, G:0.08, T:0.17
Consensus pattern (13 bp):
AAAATAAAAAATA
Found at i:1240736 original size:12 final size:13
Alignment explanation
Indices: 1240719--1240748 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1240709 TAAGATGTAA
1240719 AAAAACA-AAAAG
1 AAAAACATAAAAG
1240731 AAAAACATAAAAG
1 AAAAACATAAAAG
1240744 AAAAA
1 AAAAA
1240749 TAATAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.83, C:0.07, G:0.07, T:0.03
Consensus pattern (13 bp):
AAAAACATAAAAG
Found at i:1240837 original size:23 final size:23
Alignment explanation
Indices: 1240780--1240837 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
1240770 ATGTATATAT
1240780 ATATATAAATAAAAATATTAAATA
1 ATATA-AAATAAAAATATTAAATA
* * *
1240804 AAAGAAAATAAAAATATTTAA-A
1 ATATAAAATAAAAATATTAAATA
1240826 ATATAAATATAA
1 ATATAAA-ATAA
1240838 TGAACTTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
22 6 0.21
23 19 0.68
24 3 0.11
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (23 bp):
ATATAAAATAAAAATATTAAATA
Found at i:1241938 original size:4 final size:4
Alignment explanation
Indices: 1241929--1241953 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
1241919 AATAAAACCC
1241929 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
1241954 TTATATAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:1250253 original size:11 final size:11
Alignment explanation
Indices: 1250239--1250263 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1250229 AATATATAGG
1250239 TTTTGAAAACA
1 TTTTGAAAACA
1250250 TTTTGAAAACA
1 TTTTGAAAACA
1250261 TTT
1 TTT
1250264 ATATATTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (11 bp):
TTTTGAAAACA
Found at i:1250289 original size:38 final size:36
Alignment explanation
Indices: 1250148--1250572 Score: 384
Period size: 38 Copynumber: 11.6 Consensus size: 36
1250138 TTTTGACAAA
* **
1250148 ATATAATATATAATTTTTAGAAAACGATTTCCAAAAATTT
1 ATATAATATATAGTTTTT--AAAAC-ATTTTGAAAAA-TT
* * *
1250188 ATATATTATATAGTTTTTGGAAACATTTT-TAAAATAT
1 ATATAATATATAGTTTTT-AAAACATTTTGAAAAAT-T
*
1250225 ATATAATATATAGGTTTTGAAAACATTTTGAAAACATTT
1 ATATAATATATA-GTTTTTAAAACATTTTGAAAA-A-TT
* *
1250264 ATATATTATATAGTTTTTAAAACATTTTGAAAACTT
1 ATATAATATATAGTTTTTAAAACATTTTGAAAAATT
* *
1250300 ATATAGTATATAGTTTTTTAAAATATTTTTGAAAAATT
1 ATATAATATATAG-TTTTTAAAACA-TTTTGAAAAATT
*** *
1250338 ATATAATATATAG-TTTTAAATTTTTTTTTGAAAGATT
1 ATATAATATATAGTTTTTAAA--ACATTTTGAAAAATT
*
1250375 ATATAATATATAGTTTTAAAAACATTTTTGGAAAAATT
1 ATATAATATATAGTTTTTAAAACA-TTTT-GAAAAATT
* * *
1250413 ATATAGTATATAATTTTAAAAACATTTTTTGAAAAATT
1 ATATAATATATAGTTTTTAAAACA--TTTTGAAAAATT
* *
1250451 ATATAATATATAGTTTTAAAAACATTTTTTG-AAAACT
1 ATATAATATATAGTTTTTAAAACA--TTTTGAAAAATT
*
1250488 -TAT-ATA-ATA-TTTTTAAAACATTTTG-AAAACT
1 ATATAATATATAGTTTTTAAAACATTTTGAAAAATT
* **
1250519 ATATAATATATAGTTTTGAAAACATTTTTTAAAA--
1 ATATAATATATAGTTTTTAAAACATTTTGAAAAATT
1250553 ATATAATATATAGTTTTTAA
1 ATATAATATATAGTTTTTAA
1250573 TTAGTATATT
Statistics
Matches: 334, Mismatches: 33, Indels: 42
0.82 0.08 0.10
Matches are distributed among these distances:
31 11 0.03
32 3 0.01
33 13 0.04
34 25 0.07
35 17 0.05
36 29 0.09
37 68 0.20
38 128 0.38
39 23 0.07
40 17 0.05
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.46
Consensus pattern (36 bp):
ATATAATATATAGTTTTTAAAACATTTTGAAAAATT
Found at i:1251757 original size:4 final size:4
Alignment explanation
Indices: 1251748--1251779 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
1251738 ATTAGTCCTT
1251748 TTTA TTTA TTTA TTTA TTTA TTTA -TTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
1251780 ATATATGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.11
4 24 0.89
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:1251987 original size:17 final size:18
Alignment explanation
Indices: 1251965--1252001 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
1251955 TCATCTTACA
*
1251965 TTTTTTCCTTT-TTT-CT
1 TTTTTTTCTTTCTTTCCT
1251981 TTTTTTTCTTTCTTTCCT
1 TTTTTTTCTTTCTTTCCT
1251999 TTT
1 TTT
1252002 CTTATTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 10 0.56
17 3 0.17
18 5 0.28
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (18 bp):
TTTTTTTCTTTCTTTCCT
Found at i:1252078 original size:36 final size:37
Alignment explanation
Indices: 1252003--1252085 Score: 98
Period size: 36 Copynumber: 2.3 Consensus size: 37
1251993 TTTCCTTTTC
* *
1252003 TTATTATTTTGGTATTTTATTTATTTATTTACTATTA
1 TTATTATTTTGGTATTTTAATTATTTATTTACTAGTA
* * *
1252040 TTATTATTTTATGTA-TTTAATT-TTTATTTATTGGTA
1 TTATTATTTT-GGTATTTTAATTATTTATTTACTAGTA
1252076 TTATTATTTT
1 TTATTATTTT
1252086 TAACATTTTC
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
36 21 0.52
37 16 0.40
38 3 0.08
ACGTcount: A:0.24, C:0.01, G:0.06, T:0.69
Consensus pattern (37 bp):
TTATTATTTTGGTATTTTAATTATTTATTTACTAGTA
Found at i:1257103 original size:84 final size:82
Alignment explanation
Indices: 1256950--1259173 Score: 1843
Period size: 84 Copynumber: 27.1 Consensus size: 82
1256940 ACCTTTGCAT
* * * * *
1256950 CATAACTCAAGTCGAGAAGGGTTATCTGCACCAAAAGACCTTTGAGTTCGAGTACGCTCAGCTCT
1 CATAACTTAAGTCGAGAAGGGTTATCTGCACC-AAAGACCTTCGAGTTCGATTACACTCAGCTCC
* *
1257015 AAGGCATATCATTTGCAG
65 AAGGCACATCATTTACAG
* * *
1257033 CATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTC
1 CATAACTTAAGTCGAGAAGGGTTATCTG-C-ACCAAAGACCTTCGAGTTCGATTACACTCAGCTC
*
1257098 CAAGGCACATCATTTGCAG
64 CAAGGCACATCATTTACAG
* * * *
1257117 CATAGCTTAAGTCGAGAAGGGCTATCTG--TCAAAGA-CTCTCGAGTTCGGTTACACTCAGCTTC
1 CATAACTTAAGTCGAGAAGGGTTATCTGCACCAAAGACCT-TCGAGTTCGATTACACTCAGC-TC
* *
1257179 GAGGGCACATCATTTACAG
64 CAAGGCACATCATTTACAG
* * * * * * *
1257198 CATAACTCAAGGCTAGAAGGGCTATCTG--CCAAAGA-CTCCCGAGTTCGACTATACTCAGCTTC
1 CATAACTTAAGTCGAGAAGGGTTATCTGCACCAAAGACCT-TCGAGTTCGATTACACTCAGC-TC
* *
1257260 TAGGGCACATCATTTACAG
64 CAAGGCACATCATTTACAG
* * ** * ** * * * *
1257279 CATAACTCAAGTCTAGAAGGGTTATCTGTCAATAAATACCTTTTAGTTTGACTACACTCAACTCA
1 CATAACTTAAGTCGAGAAGGGTTATCTG-CACCAAAGACCTTCGAGTTCGATTACACTCAGCTCC
*
1257344 AAGGCACATCATTTGCAG
65 AAGGCACATCATTTACAG
** * *
1257362 CATATTTTAAGTCGAGAAGGGCTATCTG--CCAAAGACCATCGAGTTCGATTACACTCAGCTCCA
1 CATAACTTAAGTCGAGAAGGGTTATCTGCACCAAAGACCTTCGAGTTCGATTACACTCAGCTCCA
1257425 AGGGCACATCATTTACAG
66 A-GGCACATCATTTACAG
** * * * * * * *
1257443 CATAACGCAAGGCTAGAAAGGTTATCTATG-ATCAAAAGACCTTCAAGTTCGACTACACTCAACT
1 CATAACTTAAGTCGAGAAGGGTTATC--TGCA-CCAAAGACCTTCGAGTTCGATTACACTCAGCT
* * *
1257507 CCAAGGCATATCATTTGCTG
63 CCAAGGCACATCATTTACAG
* * * * * *
1257527 TATAACTTAAGTC-AAAAGGGTTATCTACCAACCAAAGACCTTCGAGTTCGACTACGCTCAACTC
1 CATAACTTAAGTCGAGAAGGGTTATCT-GC-ACCAAAGACCTTCGAGTTCGATTACACTCAGCTC
*
1257591 CAAGGCACATCATTTGCAG
64 CAAGGCACATCATTTACAG
* * * ** * *
1257610 CATAGCTTAAGTCG-GAAAGGATATCTG--CCAAAGACCCCCGAGTTTGATTAAACTCAGCT-CA
1 CATAACTTAAGTCGAGAAGGGTTATCTGCACCAAAGACCTTCGAGTTCGATTACACTCAGCTCCA
*
1257671 GAGGGCATATCATTTACAG
66 -A-GGCACATCATTTACAG
* * * * ** * *
1257690 CATAACTCAAGACTATAAGGGTTATCTGTCAATAAAGACCTTTGAGTTCG---A-ACTCAGCTCA
1 CATAACTTAAGTCGAGAAGGGTTATCTG-CACCAAAGACCTTCGAGTTCGATTACACTCAGCTCC
* *
1257751 AAGGCACATCATTTGCAA
65 AAGGCACATCATTTACAG
* * * * * * * *
1257769 CATAGCTTAAGTCGAGAAGAGCTATCTG--CTAAAGACCCTCAAGTTCGATTACATTCAGCTTCG
1 CATAACTTAAGTCGAGAAGGGTTATCTGCACCAAAGACCTTCGAGTTCGATTACACTCAGC-TCC
* *
1257832 AGGGCACATTATTTACA-
65 AAGGCACATCATTTACAG
* * * * * * *
1257849 CATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTTAGCTC
1 CATAACTTAAGTCGAGAAGGGTTATCTG-CACC-AAAGACCTTCGAGTTCGATTACACTCAGCTC
*
1257914 CAAGGCATATCATTTACAG
64 CAAGGCACATCATTTACAG
* *
1257933 CATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACACTCAGCTC
1 CATAACTTAAGTCGAGAAGGGTTATCTG-C-ACCAAAGACCTTCGAGTTCGATTACACTCAGCTC
* **
1257998 CAAGGTACATCATTTGTAG
64 CAAGGCACATCATTTACAG
* * * ** *
1258017 CATAGCTTAAGTCGAGAAAGGCTATCTG--CCAAAGACCCCCGAGTTCGATTATACTCAGCTCCG
1 CATAACTTAAGTCGAGAAGGGTTATCTGCACCAAAGACCTTCGAGTTCGATTACACTCAGCTCC-
*
1258080 AGGGCACATCATTTACAG
65 AAGGCACATCATTTACAG
* *** * ** * *
1258098 CATAACTCAAGGATAAAAGGGTTATCTGTCAATAAAGACCTTTGAGTTCGATTACACTCAGCTCA
1 CATAACTTAAGTCGAGAAGGGTTATCTG-CACCAAAGACCTTCGAGTTCGATTACACTCAGCTCC
*
1258163 AAGGCACATCATTTGCA-
65 AAGGCACATCATTTACAG
** * * *
1258180 CATAGTTTAAGTCGAGAAGGGTTATCTG--CCAAAGACCCTCGAGTTCGATTACACTCACCTTCG
1 CATAACTTAAGTCGAGAAGGGTTATCTGCACCAAAGACCTTCGAGTTCGATTACACTCAGC-TCC
* * *
1258243 AGGGCACATCATTAACAA
65 AAGGCACATCATTTACAG
* * * * *
1258261 CATAACTCAAGGCTAGAAGGGTTATCT-CTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCT
1 CATAACTTAAGTCGAGAAGGGTTATCTGC--ACC-AAAGACCTTCGAGTTCGATTACACTCAGCT
* *
1258325 CCAAGGCATATCATTTGCAG
63 CCAAGGCACATCATTTACAG
* * * *
1258345 CATAACTTAAGTCGAGAAGGGTTATCTTCCAACCAAAAACCTTCGAGTTCGACTACGCTCAGCTC
1 CATAACTTAAGTCGAGAAGGGTTATC-TGC-ACCAAAGACCTTCGAGTTCGATTACACTCAGCTC
* **
1258410 CAAGGCATATCATTTGTAG
64 CAAGGCACATCATTTACAG
* * ** * *
1258429 CATAGCTTAAGTCGAGAAGGGCTATCTG--CCAAAGACCCCCGAGTT-GATTATACTCAGCTTCG
1 CATAACTTAAGTCGAGAAGGGTTATCTGCACCAAAGACCTTCGAGTTCGATTACACTCAGC-TCC
* * *
1258491 AGGGCACATCATTTATAA
65 AAGGCACATCATTTACAG
* * * ** * *
1258509 CATAACTCAAGGCTAGAAGGGTTATCTGTCAATAAAGACCTTTGAGTTCGATTACACTCA-CTCA
1 CATAACTTAAGTCGAGAAGGGTTATCTG-CACCAAAGACCTTCGAGTTCGATTACACTCAGCTCC
*
1258573 AAGGCACATTATTT--AG
65 AAGGCACATCATTTACAG
** * * * *
1258589 CATAGTTTAAGTCGAGAAGGGCTATTTG--CCAAAGACCCTCGAGTTCGATTACACTCAGCTTCG
1 CATAACTTAAGTCGAGAAGGGTTATCTGCACCAAAGACCTTCGAGTTCGATTACACTCAGC-TCC
*
1258652 AGGGCACATCATTTACAG
65 AAGGCACATCATTTACAG
* * * * * * *
1258670 TATAACTTAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGATTTCGACTACGCTCAGCTC
1 CATAACTTAAGTCGAGAAGGGTTATCTG-CACC-AAAGACCTTCGAGTTCGATTACACTCAGCTC
*
1258735 CAAGGCATATCATTTACAG
64 CAAGGCACATCATTTACAG
* * *
1258754 CATAACTTAAGTCGAGAAGGGTTATCTGCTAACCAAAGACCTTCAAGTTCGACTACGCTCAGCTC
1 CATAACTTAAGTCGAGAAGGGTTATCTGC--ACCAAAGACCTTCGAGTTCGATTACACTCAGCTC
* *
1258819 CAAGGAACATCATTTGCAG
64 CAAGGCACATCATTTACAG
* * * * * * *
1258838 CATAGCTTAAGTCGAAAAGGGCTATCT-C-CCAAAGACC-CCTGAGTTTGATTATACTCAGCTCT
1 CATAACTTAAGTCGAGAAGGGTTATCTGCACCAAAGACCTTC-GAGTTCGATTACACTCAGCTCC
*
1258900 AAGGGCACATCATTTACAA
65 AA-GGCACATCATTTACAG
* * * * ** * *
1258919 CATAACTCAAGACTAGAAAGGTTATCTGTCAATAAAGACCTTTGAGTTCGATTACACTCAGCTCA
1 CATAACTTAAGTCGAGAAGGGTTATCTG-CACCAAAGACCTTCGAGTTCGATTACACTCAGCTCC
*
1258984 AAAGCACATCATTT---G
65 AAGGCACATCATTTACAG
* * * ** * **
1258999 TATAGCTTAAGTCGAGAAGGGCTATCTG--CCAAAGACCCCCGAGTTCGATTATACTCAGCTTTG
1 CATAACTTAAGTCGAGAAGGGTTATCTGCACCAAAGACCTTCGAGTTCGATTACACTCAGC-TCC
* * * *
1259062 AGGGCATATCATTTGCTG
65 AAGGCACATCATTTACAG
* * * *
1259080 CATAACTTAAGTCGAGAAGGGTTATCTGCTAACCAAAGACCTTCGAGTTTGACTACGCTTAGCTC
1 CATAACTTAAGTCGAGAAGGGTTATCTGC--ACCAAAGACCTTCGAGTTCGATTACACTCAGCTC
*
1259145 CAAGGAACATCATTTACAG
64 CAAGGCACATCATTTACAG
*
1259164 CATAGCTTAA
1 CATAACTTAA
1259174 AAGAATATCT
Statistics
Matches: 1708, Mismatches: 356, Indels: 153
0.77 0.16 0.07
Matches are distributed among these distances:
76 15 0.01
77 50 0.03
78 15 0.01
79 114 0.07
80 278 0.16
81 315 0.18
82 35 0.02
83 206 0.12
84 559 0.33
85 120 0.07
86 1 0.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (82 bp):
CATAACTTAAGTCGAGAAGGGTTATCTGCACCAAAGACCTTCGAGTTCGATTACACTCAGCTCCA
AGGCACATCATTTACAG
Found at i:1257392 original size:164 final size:162
Alignment explanation
Indices: 1256950--1259173 Score: 1846
Period size: 164 Copynumber: 13.6 Consensus size: 162
1256940 ACCTTTGCAT
* * * * * *
1256950 CATAACTCAAGTCGAGAAGGGTTATCTGCACCAAAAGACCTTTGAGTTCGAGTACGCTCAGCTCT
1 CATAACTTAAGTCGAGAAGGGTTATCTGCAAC-AAAGACCTTCGAGTTCGATTACACTCAGCTCC
* *
1257015 AAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAG
65 AAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG----CCAAAGACCTTCGAG
* *
1257080 TTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAG
126 TTCGACTACACTCAGCTCCAAGGCACATCATTTACAG
* * * *
1257117 CATAGCTTAAGTCGAGAAGGGCTATCTG--TCAAAGA-CTCTCGAGTTCGGTTACACTCAGCTTC
1 CATAACTTAAGTCGAGAAGGGTTATCTGCAACAAAGACCT-TCGAGTTCGATTACACTCAGC-TC
* * * * * * * *
1257179 GAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGCTATCTGCCAAAGA-CTCCCGAGTT
64 CAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAAGACCT-TCGAGTT
* * *
1257243 CGACTATACTCAGCTTCTAGGGCACATCATTTACAG
128 CGACTACACTCAGC-TCCAAGGCACATCATTTACAG
* * * * ** * * * *
1257279 CATAACTCAAGTCTAGAAGGGTTATCTGTCAATAAATACCTTTTAGTTTGACTACACTCAACTCA
1 CATAACTTAAGTCGAGAAGGGTTATCTG-CAACAAAGACCTTCGAGTTCGATTACACTCAGCTCC
** * *
1257344 AAGGCACATCATTTGCAGCATATTTTAAGTCGAGAAGGGCTATCTGCCAAAGACCATCGAGTTCG
65 AAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAAGACCTTCGAGTTCG
*
1257409 ATTACACTCAGCTCCAAGGGCACATCATTTACAG
130 ACTACACTCAGCTCCAA-GGCACATCATTTACAG
** * * * * * * *
1257443 CATAACGCAAGGCTAGAAAGGTTATCTATG-ATCAAAAGACCTTCAAGTTCGACTACACTCAACT
1 CATAACTTAAGTCGAGAAGGGTTATC--TGCAAC-AAAGACCTTCGAGTTCGATTACACTCAGCT
* * * * *
1257507 CCAAGGCATATCATTTGCTGTATAACTTAAGTC-AAAAGGGTTATCTACCAACCAAAGACCTTCG
63 CCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCT----GCCAAAGACCTTCG
* * *
1257571 AGTTCGACTACGCTCAACTCCAAGGCACATCATTTGCAG
124 AGTTCGACTACACTCAGCTCCAAGGCACATCATTTACAG
* * * ** * *
1257610 CATAGCTTAAGTCG-GAAAGGATATCTGC--CAAAGACCCCCGAGTTTGATTAAACTCAGCT-CA
1 CATAACTTAAGTCGAGAAGGGTTATCTGCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCCA
* * * * * * * *
1257671 GAGGGCATATCATTTACAGCATAACTCAAGACTATAAGGGTTATCTGTCAATAAAGACCTTTGAG
66 -A-GGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG-C--CAAAGACCTTCGAG
* * *
1257736 TTCG---A-ACTCAGCTCAAAGGCACATCATTTGCAA
126 TTCGACTACACTCAGCTCCAAGGCACATCATTTACAG
* * * * * * * *
1257769 CATAGCTTAAGTCGAGAAGAGCTATCTGC--TAAAGACCCTCAAGTTCGATTACATTCAGCTTCG
1 CATAACTTAAGTCGAGAAGGGTTATCTGCAACAAAGACCTTCGAGTTCGATTACACTCAGC-TCC
* * * * * *
1257832 AGGGCACATTATTTACA-CATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAG
65 AAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATC--TG-CC-AAAGACCTTCGAG
* * *
1257896 TTCGACTACGCTTAGCTCCAAGGCATATCATTTACAG
126 TTCGACTACACTCAGCTCCAAGGCACATCATTTACAG
* *
1257933 CATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACACTCAGCTC
1 CATAACTTAAGTCGAGAAGGGTTATCTG-CAA-CAAAGACCTTCGAGTTCGATTACACTCAGCTC
* * * * * **
1257998 CAAGGTACATCATTTGTAGCATAGCTTAAGTCGAGAAAGGCTATCTGCCAAAGACCCCCGAGTTC
64 CAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAAGACCTTCGAGTTC
* * *
1258063 GATTATACTCAGCTCCGAGGGCACATCATTTACAG
129 GACTACACTCAGCTCC-AAGGCACATCATTTACAG
* *** * * * *
1258098 CATAACTCAAGGATAAAAGGGTTATCTGTCAATAAAGACCTTTGAGTTCGATTACACTCAGCTCA
1 CATAACTTAAGTCGAGAAGGGTTATCTG-CAACAAAGACCTTCGAGTTCGATTACACTCAGCTCC
** *
1258163 AAGGCACATCATTTGCA-CATAGTTTAAGTCGAGAAGGGTTATCTGCCAAAGACCCTCGAGTTCG
65 AAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAAGACCTTCGAGTTCG
* * * * * *
1258227 ATTACACTCACCTTCGAGGGCACATCATTAACAA
130 ACTACACTCAGC-TCCAAGGCACATCATTTACAG
* * * * * *
1258261 CATAACTCAAGGCTAGAAGGGTTATCT-CTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCT
1 CATAACTTAAGTCGAGAAGGGTTATCTGC--AAC-AAAGACCTTCGAGTTCGATTACACTCAGCT
* * *
1258325 CCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTTCCAACCAAAAACCTTCG
63 CCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATC-T---GCCAAAGACCTTCG
* * **
1258390 AGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGTAG
124 AGTTCGACTACACTCAGCTCCAAGGCACATCATTTACAG
* * ** * *
1258429 CATAGCTTAAGTCGAGAAGGGCTATCTGC--CAAAGACCCCCGAGTT-GATTATACTCAGCTTCG
1 CATAACTTAAGTCGAGAAGGGTTATCTGCAACAAAGACCTTCGAGTTCGATTACACTCAGC-TCC
* ** * * * * * *
1258491 AGGGCACATCATTTATAACATAACTCAAGGCTAGAAGGGTTATCTGTCAATAAAGACCTTTGAGT
65 AAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG-C--CAAAGACCTTCGAGT
* * *
1258556 TCGATTACACTCA-CTCAAAGGCACATTATTT--AG
127 TCGACTACACTCAGCTCCAAGGCACATCATTTACAG
** * * * *
1258589 CATAGTTTAAGTCGAGAAGGGCTATTTGC--CAAAGACCCTCGAGTTCGATTACACTCAGCTTCG
1 CATAACTTAAGTCGAGAAGGGTTATCTGCAACAAAGACCTTCGAGTTCGATTACACTCAGC-TCC
* * * * * *
1258652 AGGGCACATCATTTACAGTATAACTTAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAT
65 AAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATC--TG-CC-AAAGACCTTCGAG
* *
1258717 TTCGACTACGCTCAGCTCCAAGGCATATCATTTACAG
126 TTCGACTACACTCAGCTCCAAGGCACATCATTTACAG
* * *
1258754 CATAACTTAAGTCGAGAAGGGTTATCTGCTAACCAAAGACCTTCAAGTTCGACTACGCTCAGCTC
1 CATAACTTAAGTCGAGAAGGGTTATCTGC-AA-CAAAGACCTTCGAGTTCGATTACACTCAGCTC
* * * * * *
1258819 CAAGGAACATCATTTGCAGCATAGCTTAAGTCGAAAAGGGCTATCTCCCAAAGACC-CCTGAGTT
64 CAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAAGACCTTC-GAGTT
* * * * *
1258883 TGATTATACTCAGCTCTAAGGGCACATCATTTACAA
128 CGACTACACTCAGCTCCAA-GGCACATCATTTACAG
* * * * * * *
1258919 CATAACTCAAGACTAGAAAGGTTATCTGTCAATAAAGACCTTTGAGTTCGATTACACTCAGCTCA
1 CATAACTTAAGTCGAGAAGGGTTATCTG-CAACAAAGACCTTCGAGTTCGATTACACTCAGCTCC
* * * * **
1258984 AAAGCACATCATTT---GTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCG
65 AAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAAGACCTTCGAGTTCG
* * ** * * * *
1259046 ATTATACTCAGCTTTGAGGGCATATCATTTGCTG
130 ACTACACTCAGC-TCCAAGGCACATCATTTACAG
* * * *
1259080 CATAACTTAAGTCGAGAAGGGTTATCTGCTAACCAAAGACCTTCGAGTTTGACTACGCTTAGCTC
1 CATAACTTAAGTCGAGAAGGGTTATCTGC-AA-CAAAGACCTTCGAGTTCGATTACACTCAGCTC
* * *
1259145 CAAGGAACATCATTTACAGCATAGCTTAA
64 CAAGGCACATCATTTGCAGCATAACTTAA
1259174 AAGAATATCT
Statistics
Matches: 1676, Mismatches: 306, Indels: 152
0.79 0.14 0.07
Matches are distributed among these distances:
159 62 0.04
160 112 0.07
161 180 0.11
162 147 0.09
163 195 0.12
164 432 0.26
165 264 0.16
166 19 0.01
167 63 0.04
168 149 0.09
169 53 0.03
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (162 bp):
CATAACTTAAGTCGAGAAGGGTTATCTGCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCCA
AGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAAGACCTTCGAGTTCGA
CTACACTCAGCTCCAAGGCACATCATTTACAG
Found at i:1258032 original size:248 final size:244
Alignment explanation
Indices: 1256950--1259173 Score: 1612
Period size: 248 Copynumber: 9.0 Consensus size: 244
1256940 ACCTTTGCAT
* * * *
1256950 CATAACTCAAGTCGAGAAGGGTTATCTGC-ACCAAAAGACCTTTGAGTTCGAGTACGCTCAGCTC
1 CATAACTTAAGTCGAGAAGGGTTATCTGCAACC-AAAGACCTTCGAGTTCGATTACACTCAGCTC
* * * * * * * *
1257014 TAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGA
65 AAAGGCACATCATTTACAACATAACTTAAGTCGAGAAGGGCTATCTG----CTAAAGACCCTCGA
* * * * * *
1257079 GTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCT
126 GTTCGATTACACTCAGCTCGAAGGCACATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCT
** * *
1257144 GT-C-AAAGA-CTCTCGAGTTCGGTTACACTCAGCTTCGAGGGCACATCATTTACAG
191 -TCCAAAAGACCT-TCGAGTTCGACTACACTCAGC-TCCAAGGCACATCATTTACAG
* * * * * * *
1257198 CATAACTCAAGGCTAGAAGGGCTATCTG---CCAAAGA-CTCCCGAGTTCGACTATACTCAGCTT
1 CATAACTTAAGTCGAGAAGGGTTATCTGCAACCAAAGACCT-TCGAGTTCGATTACACTCAGC-T
* * * * * * * * **
1257259 CTAGGGCACATCATTTACAGCATAACTCAAGTCTAGAAGGGTTATCTGTCAATAAATACCTTTTA
64 CAAAGGCACATCATTTACAACATAACTTAAGTCGAGAAGGGCTATCTG-C--TAAAGACCCTCGA
* * * * * ** *
1257324 GTTTGACTACACTCAACTCAAAGGCACATCATTTGCAGCATATTTTAAGTCGAGAAGGGCTATCT
126 GTTCGATTACACTCAGCTCGAAGGCACATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCT
* * *
1257389 GCC-AAAGACCATCGAGTTCGATTACACTCAGCTCCAAGGGCACATCATTTACAG
191 TCCAAAAGACCTTCGAGTTCGACTACACTCAGCTCCAA-GGCACATCATTTACAG
** * * * * * * * *
1257443 CATAACGCAAGGCTAGAAAGGTTATCTATG-ATCAAAAGACCTTCAAGTTCGACTACACTCAACT
1 CATAACTTAAGTCGAGAAGGGTTATC--TGCAACCAAAGACCTTCGAGTTCGATTACACTCAGCT
* * * *** * * * * *
1257507 CCAAGGCATATCATTTGCTGTATAACTTAAGTC-AAAAGGGTTATCTACCAACCAAAGACCTTCG
64 CAAAGGCACATCATTTACAACATAACTTAAGTCGAGAAGGGCTATCT----GCTAAAGACCCTCG
* * * * * * * *
1257571 AGTTCGACTACGCTCAACTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCG-GAAAGGATATC
125 AGTTCGATTACACTCAGCTCGAAGGCACATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATC
* ** * * * *
1257635 TGCC-AAAGACCCCCGAGTTTGATTAAACTCAGCT-CAGAGGGCATATCATTTACAG
190 TTCCAAAAGACCTTCGAGTTCGACTACACTCAGCTCCA-A-GGCACATCATTTACAG
* * * * * *
1257690 CATAACTCAAGACTATAAGGGTTATCTGTCAA-TAAAGACCTTTGAGTTCG---A-ACTCAGCTC
1 CATAACTTAAGTCGAGAAGGGTTATCTG-CAACCAAAGACCTTCGAGTTCGATTACACTCAGCTC
* * * *
1257750 AAAGGCACATCATTTGCAACATAGCTTAAGTCGAGAAGAGCTATCTGCTAAAGACCCTCAAGTTC
65 AAAGGCACATCATTTACAACATAACTTAAGTCGAGAAGGGCTATCTGCTAAAGACCCTCGAGTTC
* * * * * *
1257815 GATTACATTCAGCTTCGAGGGCACATTATTTACA-CATAACTCAAGGCTAGAAGGGTTATCTGTG
130 GATTACACTCAGC-TCGAAGGCACATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCT-T-
* * *
1257879 ACCAAAAGACCTTCGAGTTCGACTACGCTTAGCTCCAAGGCATATCATTTACAG
192 -CCAAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTACAG
* *
1257933 CATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACACTCAGCTC
1 CATAACTTAAGTCGAGAAGGGTTATCTG-CAACCAAAGACCTTCGAGTTCGATTACACTCAGCTC
* * ** * * * * *
1257998 CAAGGTACATCATTTGTAGCATAGCTTAAGTCGAGAAAGGCTATCTGCCAAAGACCCCCGAGTTC
65 AAAGGCACATCATTTACAACATAACTTAAGTCGAGAAGGGCTATCTGCTAAAGACCCTCGAGTTC
* * * *** *
1258063 GATTATACTCAGCTCCGAGGGCACATCATTTACAGCATAACTCAAGGATAAAAGGGTTATCTGTC
130 GATTACACTCAGCT-CGAAGGCACATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCT-TC
* * * * *
1258128 AATAAAGACCTTTGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCA-
193 CA-AAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTACAG
** * *
1258180 CATAGTTTAAGTCGAGAAGGGTTATCTG---CCAAAGACCCTCGAGTTCGATTACACTCACCTTC
1 CATAACTTAAGTCGAGAAGGGTTATCTGCAACCAAAGACCTTCGAGTTCGATTACACTCAGC-TC
* * * * * * * * *
1258242 GAGGGCACATCATTAACAACATAACTCAAGGCTAGAAGGGTTATCTCTGACCAAAAGACCTTCGA
65 AAAGGCACATCATTTACAACATAACTTAAGTCGAGAAGGGCTA--TCTG--CTAAAGACCCTCGA
* * * * *
1258307 GTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCT
126 GTTCGATTACACTCAGCTCGAAGGCACATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCT
* * * **
1258372 TCCAACCAAAAACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGTAG
191 TCC-A--AAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTACAG
* * ** *
1258429 CATAGCTTAAGTCGAGAAGGGCTATCTG---CCAAAGACCCCCGAGTT-GATTATACTCAGCTTC
1 CATAACTTAAGTCGAGAAGGGTTATCTGCAACCAAAGACCTTCGAGTTCGATTACACTCAGC-TC
* * * * * * * * *
1258490 GAGGGCACATCATTTATAACATAACTCAAGGCTAGAAGGGTTATCTGTCAATAAAGACCTTTGAG
65 AAAGGCACATCATTTACAACATAACTTAAGTCGAGAAGGGCTATCTG-C--TAAAGACCCTCGAG
* * ** *
1258555 TTCGATTACACTCA-CTCAAAGGCACATTATTT--AGCATAGTTTAAGTCGAGAAGGGCTAT-TT
127 TTCGATTACACTCAGCTCGAAGGCACATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTT
* * * *
1258616 GCC-AAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAG
192 -CCAAAAGACCTTCGAGTTCGACTACACTCAGC-TCCAAGGCACATCATTTACAG
* * * ** * * *
1258670 TATAACTTAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGATTTCGACTACGCTCAGCTC
1 CATAACTTAAGTCGAGAAGGGTTATCTGCAACC-AAAGACCTTCGAGTTCGATTACACTCAGCTC
* * * * * *
1258735 CAAGGCATATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCTAACCAAAGACCTTCAA
65 AAAGGCACATCATTTACAACATAACTTAAGTCGAGAAGGGCTATCTGCT----AAAGACCCTCGA
* * * * * * * *
1258800 GTTCGACTACGCTCAGCTCCAAGGAACATCATTTGCAGCATAGCTTAAGTCGAAAAGGGCTATC-
126 GTTCGATTACACTCAGCTCGAAGGCACATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCT
* * * * * * *
1258864 TCCCAAAGACC-CCTGAGTTTGATTATACTCAGCTCTAAGGGCACATCATTTACAA
191 TCCAAAAGACCTTC-GAGTTCGACTACACTCAGCTCCAA-GGCACATCATTTACAG
* * * * * *
1258919 CATAACTCAAGACTAGAAAGGTTATCTGTCAA-TAAAGACCTTTGAGTTCGATTACACTCAGCTC
1 CATAACTTAAGTCGAGAAGGGTTATCTG-CAACCAAAGACCTTCGAGTTCGATTACACTCAGCTC
* ** * * *
1258983 AAAAGCACATCATTT---GTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTC
65 AAAGGCACATCATTTACAACATAACTTAAGTCGAGAAGGGCTATCTGCTAAAGACCCTCGAGTTC
* * * * * *
1259045 GATTATACTCAGCTTTGAGGGCATATCATTTGCTGCATAACTTAAGTCGAGAAGGGTTATCTGCT
130 GATTACACTCAGC-TCGAAGGCACATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCT--T
* * * *
1259110 AACC-AAAGACCTTCGAGTTTGACTACGCTTAGCTCCAAGGAACATCATTTACAG
192 --CCAAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTACAG
*
1259164 CATAGCTTAA
1 CATAACTTAA
1259174 AAGAATATCT
Statistics
Matches: 1625, Mismatches: 280, Indels: 145
0.79 0.14 0.07
Matches are distributed among these distances:
239 34 0.02
240 51 0.03
241 62 0.04
242 73 0.04
243 86 0.05
244 107 0.07
245 263 0.16
246 148 0.09
247 204 0.13
248 412 0.25
249 181 0.11
250 4 0.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (244 bp):
CATAACTTAAGTCGAGAAGGGTTATCTGCAACCAAAGACCTTCGAGTTCGATTACACTCAGCTCA
AAGGCACATCATTTACAACATAACTTAAGTCGAGAAGGGCTATCTGCTAAAGACCCTCGAGTTCG
ATTACACTCAGCTCGAAGGCACATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTTCCAA
AAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTACAG
Done.