Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 109 of 310
Found at i:34753275 original size:33 final size:33
Alignment explanation
Indices: 34753180--34753277 Score: 108
Period size: 33 Copynumber: 3.0 Consensus size: 33
34753170 TGAAAAGGTT
* * **
34753180 ATGTACACTTTGTGTGTA-CACTTGGAAAGGTT
1 ATGTATACTTTGTGTGTACCATTTGGAAAGGAA
* * * **
34753212 AGGTATACTTTGTGTATACCATATAAAAAGGAA
1 ATGTATACTTTGTGTGTACCATTTGGAAAGGAA
34753245 ATGTATACTTTGTGTGTACCATTTGGAAAGGAA
1 ATGTATACTTTGTGTGTACCATTTGGAAAGGAA
34753278 TGTGCACCTT
Statistics
Matches: 51, Mismatches: 14, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
32 15 0.29
33 36 0.71
ACGTcount: A:0.33, C:0.10, G:0.22, T:0.35
Consensus pattern (33 bp):
ATGTATACTTTGTGTGTACCATTTGGAAAGGAA
Found at i:34758001 original size:20 final size:20
Alignment explanation
Indices: 34757976--34758019 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
34757966 AGGCAACGTT
34757976 CGTGTGGCCTGGGACATGGC
1 CGTGTGGCCTGGGACATGGC
*
34757996 CGTGTGGCCTGGGATATGGC
1 CGTGTGGCCTGGGACATGGC
34758016 CGTG
1 CGTG
34758020 GGGCTAGGCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.09, C:0.23, G:0.45, T:0.23
Consensus pattern (20 bp):
CGTGTGGCCTGGGACATGGC
Found at i:34763111 original size:32 final size:33
Alignment explanation
Indices: 34763064--34763178 Score: 99
Period size: 32 Copynumber: 3.5 Consensus size: 33
34763054 TACCCAAATG
*
34763064 GTACAACTTGAAAAGGTTATGTACACTTTGTGT
1 GTACAACTTGAAAAGGTTAGGTACACTTTGTGT
* *
34763097 GTAC-ACTTGGAAAGGTTAGGTATACTTTGTGT
1 GTACAACTTGAAAAGGTTAGGTACACTTTGTGT
* * *** *
34763129 ATACCA-TATGAAAAGAAAAAGGTATACTTTGTGT
1 GTACAACT-TGAAAAG-GTTAGGTACACTTTGTGT
* *
34763163 GTACCACTTGGAAAGG
1 GTACAACTTGAAAAGG
34763179 AGTGTACACC
Statistics
Matches: 67, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
32 29 0.43
33 11 0.16
34 26 0.39
35 1 0.01
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.32
Consensus pattern (33 bp):
GTACAACTTGAAAAGGTTAGGTACACTTTGTGT
Found at i:34765979 original size:13 final size:13
Alignment explanation
Indices: 34765961--34765987 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
34765951 TATCTGAATA
34765961 AGGAAATTGTGAT
1 AGGAAATTGTGAT
34765974 AGGAAATTGTGAT
1 AGGAAATTGTGAT
34765987 A
1 A
34765988 AAAGTTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.30, T:0.30
Consensus pattern (13 bp):
AGGAAATTGTGAT
Found at i:34766767 original size:20 final size:21
Alignment explanation
Indices: 34766742--34766797 Score: 55
Period size: 19 Copynumber: 2.8 Consensus size: 21
34766732 GAAGTTAGAT
34766742 ATTTTGGTGTGAGCTTGA-AA
1 ATTTTGGTGTGAGCTTGAGAA
* ** *
34766762 ATTTTGCT-AAATCTT-AGAA
1 ATTTTGGTGTGAGCTTGAGAA
34766781 ATTTTGGTGTGAGCTTG
1 ATTTTGGTGTGAGCTTG
34766798 GAGCTCACCA
Statistics
Matches: 25, Mismatches: 8, Indels: 5
0.66 0.21 0.13
Matches are distributed among these distances:
18 1 0.04
19 13 0.52
20 11 0.44
ACGTcount: A:0.25, C:0.07, G:0.25, T:0.43
Consensus pattern (21 bp):
ATTTTGGTGTGAGCTTGAGAA
Found at i:34768087 original size:16 final size:16
Alignment explanation
Indices: 34768066--34768097 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
34768056 CATATGGAAT
34768066 TTCAAAAACTATCAAA
1 TTCAAAAACTATCAAA
34768082 TTCAAAAACTATCAAA
1 TTCAAAAACTATCAAA
34768098 GTGCTTGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.25
Consensus pattern (16 bp):
TTCAAAAACTATCAAA
Found at i:34768434 original size:32 final size:31
Alignment explanation
Indices: 34768388--34768455 Score: 118
Period size: 32 Copynumber: 2.2 Consensus size: 31
34768378 TGTTTCATGA
*
34768388 TGTTTGACAATGGTTGTATGTTTGCTTACTTT
1 TGTTCGACAATGGTTGTATGTTTGCTTAC-TT
34768420 TGTTCGACAATGGTTGTATGTTTGCTTACTT
1 TGTTCGACAATGGTTGTATGTTTGCTTACTT
34768451 TGTTC
1 TGTTC
34768456 ACTTTTGTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
31 7 0.20
32 28 0.80
ACGTcount: A:0.15, C:0.12, G:0.22, T:0.51
Consensus pattern (31 bp):
TGTTCGACAATGGTTGTATGTTTGCTTACTT
Found at i:34776676 original size:3 final size:3
Alignment explanation
Indices: 34776668--34776846 Score: 109
Period size: 3 Copynumber: 60.0 Consensus size: 3
34776658 TTAATTTAAC
** * * * *
34776668 ATT ATT ATT ATT GCT ATT ATT ACT ATC ATT ATT ATT ATT ACT ACT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * *
34776716 ATT ATA ATT -TT ATC ACT ATT ATT ATT GTT ATT ATT TTT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * *
34776763 ACT ATT ATA ATT A-T ATT -TT CTT TTT GTGT -TT ATTT ACTT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT A-TT A-TT ATT ATT
* *
34776808 -TT ATT ATT AATT AATT -TA ATT ATT ATT ACT ATT ATT ATT
1 ATT ATT ATT -ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT
34776847 GTCTTCCTTT
Statistics
Matches: 136, Mismatches: 31, Indels: 18
0.74 0.17 0.10
Matches are distributed among these distances:
2 10 0.07
3 112 0.82
4 14 0.10
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:34782841 original size:27 final size:28
Alignment explanation
Indices: 34782768--34782842 Score: 73
Period size: 27 Copynumber: 2.6 Consensus size: 28
34782758 GAATATCCAA
* *
34782768 CCTAAACACACCTGGAATAATATAAATCCT
1 CCTAAACACACC-GGTATAATAT-AAGCCT
**
34782798 CC-ATAACACACTAGTATAATAT-AGCCT
1 CCTA-AACACACCGGTATAATATAAGCCT
34782825 CCTAAACACACCGGTATA
1 CCTAAACACACCGGTATA
34782843 TCATATCCTC
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
27 18 0.49
28 1 0.03
29 9 0.24
30 9 0.24
ACGTcount: A:0.41, C:0.28, G:0.08, T:0.23
Consensus pattern (28 bp):
CCTAAACACACCGGTATAATATAAGCCT
Found at i:34783346 original size:15 final size:15
Alignment explanation
Indices: 34783326--34783356 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
34783316 ATCCCAATTT
*
34783326 TTCCCCTTTTTTTTC
1 TTCCCCTTTTTCTTC
34783341 TTCCCCTTTTTCTTC
1 TTCCCCTTTTTCTTC
34783356 T
1 T
34783357 CCTGTTTGCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (15 bp):
TTCCCCTTTTTCTTC
Found at i:34787417 original size:44 final size:43
Alignment explanation
Indices: 34787262--34787419 Score: 131
Period size: 44 Copynumber: 3.6 Consensus size: 43
34787252 TGAATCCACA
* ** * * *
34787262 AATCTTATCTCCCTGAAGTAGTGGTGGAACAGATTGAAG-TTGT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTGAAGAAT-C
* * *
34787305 AGATCTTATCTCCTTGAAGTTGCAGTGGAGTAGATCGAA-AATGGC
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTGAAGAAT--C
* * *
34787350 GAATCTTATCTTCCTAAAGTTGCAGTGGAATAGATTGAAGCCATC
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTGAAG-AATC
*
34787395 AACCTTATCTCCCTGAAGTTGCAGT
1 AATCTTATCTCCCTGAAGTTGCAGT
34787420 AGGAGCAAAC
Statistics
Matches: 91, Mismatches: 18, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
43 1 0.01
44 53 0.58
45 34 0.37
46 1 0.01
47 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTGAAGAATC
Found at i:34787787 original size:143 final size:144
Alignment explanation
Indices: 34787348--34788058 Score: 890
Period size: 143 Copynumber: 5.0 Consensus size: 144
34787338 ATCGAAAATG
* ** * *
34787348 GCGAATCTTATCTTCCTAAAGTTGCAGTGGAATAGATTGAAGCCATCAACCTTATCTCCCTGAAG
1 GCGAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAG
* **
34787413 TTGCAGTAGGAGCAAACTGAAGACAGCGAATCTTATTTAGCTGACGTTGTAGTGGAACAGATTAA
66 TTGCAGTAGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGACGTTGTAGTGGAACAGATTAA
*
34787478 AGCTACAAATTATA
131 AACTACAAATTATA
* * *
34787492 GAGGATATTATCTT-CTCGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAA
1 GCGAATCTTATCTTCCT-GAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAA
* * * *
34787556 GTTGCAGTAGGAGTAGACTGAAGACAACGAATCTTATTTCCCTGACGTCGTAGTAGAACAGATTA
65 GTTGCAGTAGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGACGTTGTAGTGGAACAGATTA
*
34787621 AAACTACAAATTATG
130 AAACTACAAATTATA
* * * ** * * **
34787636 GAGGATCTTATCTTCCTAAAGTCACAGTAGAGCAGATTAAAGCCACCAGCCTTATCTATCTGAAG
1 GCGAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAG
* * ** *
34787701 TTGCTG-CGGAGCAGACTGAAGACAGCGAATCTTATTTTGCTGACGTTATAGTGGAACAGATTAA
66 TTGCAGTAGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGACGTTGTAGTGGAACAGATTAA
*
34787765 AGCTACAAATTATA
131 AACTACAAATTATA
* * * *
34787779 GCGAATCTTATCTTCTTGAAGTTGCAGTGGAACAGATTGATGCCACCAGTCTTATCTCCCTGAAG
1 GCGAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAG
* * *
34787844 TTGCAGT-GGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGACGTTGCAATGGAACAAATTAA
66 TTGCAGTAGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGACGTTGTAGTGGAACAGATTAA
*
34787908 AACTACAAA-TATG
131 AACTACAAATTATA
* * * *
34787921 GCGAATCTTATCTTCTTGAAGTTGCAATGGAGCATATTAAAGCCACCAGCCTTATCTCCCTGAAG
1 GCGAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAG
* * * * * * * * * *
34787986 TTGCAGTAAGAGCAAACTGAAGATAGAGGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA
66 TTGCAGTAGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGACGTTGTAGTGGAACAGATTAA
*
34788051 AGCTACAA
131 AACTACAA
34788059 GTTACAAATC
Statistics
Matches: 487, Mismatches: 76, Indels: 9
0.85 0.13 0.02
Matches are distributed among these distances:
142 69 0.14
143 233 0.48
144 183 0.38
145 2 0.00
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (144 bp):
GCGAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAG
TTGCAGTAGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGACGTTGTAGTGGAACAGATTAA
AACTACAAATTATA
Found at i:34787892 original size:45 final size:45
Alignment explanation
Indices: 34787778--34787901 Score: 135
Period size: 44 Copynumber: 2.8 Consensus size: 45
34787768 TACAAATTAT
* * * *
34787778 AGCGAATCTTATCTT-CTTGAAGTTGCAGTGGAACAGATTGATGCC
1 AGCGAATCTTAT-TTCCCTGAAGTTGCAGTGGAACAGACTGAAGAC
* * * *
34787823 A-CCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAC
1 AGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGACTGAAGAC
* *
34787867 AGCGAATCTTATTTCCCTGACGTTGCAATGGAACA
1 AGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACA
34787902 AATTAAAACT
Statistics
Matches: 63, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
43 1 0.02
44 34 0.54
45 28 0.44
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.27
Consensus pattern (45 bp):
AGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGACTGAAGAC
Found at i:34789196 original size:3 final size:3
Alignment explanation
Indices: 34789188--34789346 Score: 105
Period size: 3 Copynumber: 53.7 Consensus size: 3
34789178 TTAATTTAAC
* * *
34789188 ATT ATT ATT ACT ATT ATT ATT ATT ATT ATT ATT ATT -TT ATC ACT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
** * * *
34789235 ATT ATT GCT ATT ATT TTT ATT ATT ATT ACT ATT ATA ATT A-T ATT -TT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * *
34789281 CTT TTT GTGT -TT GTTT ACTT ATT ATT -TT ATT ATT AATT AAT -TT AAT
1 ATT ATT AT-T ATT -ATT A-TT ATT ATT ATT ATT ATT -ATT ATT ATT ATT
*
34789327 ATT ATT ACT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT AT
34789347 ATTTCTTTTT
Statistics
Matches: 121, Mismatches: 25, Indels: 20
0.73 0.15 0.12
Matches are distributed among these distances:
2 10 0.08
3 102 0.84
4 9 0.07
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:34789346 original size:15 final size:14
Alignment explanation
Indices: 34789299--34789377 Score: 52
Period size: 15 Copynumber: 5.4 Consensus size: 14
34789289 GTTTGTTTAC
*
34789299 TTATTATTTTATTA
1 TTATTAATTTATTA
*
34789313 TTAATTAATTTAATA
1 TT-ATTAATTTATTA
*
34789328 TTATTACTATTATTA
1 TTATTAAT-TTATTA
* * *
34789343 TTA-TATTTCTTTTT
1 TTATTAATT-TATTA
*
34789357 TTATTTATTTACTTA
1 TTATTAATTTA-TTA
34789372 TTATTA
1 TTATTA
34789378 TTCTTTAAGT
Statistics
Matches: 48, Mismatches: 12, Indels: 9
0.70 0.17 0.13
Matches are distributed among these distances:
13 1 0.02
14 17 0.35
15 30 0.62
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (14 bp):
TTATTAATTTATTA
Found at i:34793771 original size:6 final size:7
Alignment explanation
Indices: 34793752--34793780 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
34793742 CACTGAAACT
34793752 TTAAAAA
1 TTAAAAA
34793759 TTAAAAA
1 TTAAAAA
34793766 TTAAAAA
1 TTAAAAA
34793773 TTAAAAA
1 TTAAAAA
34793780 T
1 T
34793781 ATGACCCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (7 bp):
TTAAAAA
Found at i:34794331 original size:18 final size:18
Alignment explanation
Indices: 34794308--34794350 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
34794298 GAATAGATTT
34794308 TTAATTAAATAAATTTA-A
1 TTAATTAAA-AAATTTAGA
* *
34794326 TTAATTGAAAATTTTAGA
1 TTAATTAAAAAATTTAGA
34794344 TTAATTA
1 TTAATTA
34794351 TACCTTGAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTAGA
Found at i:34802345 original size:27 final size:26
Alignment explanation
Indices: 34802308--34802422 Score: 140
Period size: 27 Copynumber: 4.3 Consensus size: 26
34802298 AGCATGGCTG
* *
34802308 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
34802334 CCAGATACAGATAATCGTGGCAGGGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
34802362 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
34802389 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
34802416 CCAGAAC
1 CCAGAAC
34802423 GCTTCCTCCA
Statistics
Matches: 78, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
26 5 0.06
27 57 0.73
28 16 0.21
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:34802367 original size:54 final size:54
Alignment explanation
Indices: 34802308--34802422 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
34802298 AGCATGGCTG
* *
34802308 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGGGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
34802362 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
34802416 CCAGAAC
1 CCAGAAC
34802423 GCTTCCTCCA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 36 0.67
55 18 0.33
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:34804077 original size:26 final size:26
Alignment explanation
Indices: 34804041--34804150 Score: 168
Period size: 26 Copynumber: 4.2 Consensus size: 26
34804031 CATGAAATTC
34804041 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
34804067 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
34804093 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
34804119 TTATCATTG-AATATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
34804145 TTATCA
1 TTATCA
34804151 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
26 78 0.98
27 2 0.03
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:34807647 original size:51 final size:50
Alignment explanation
Indices: 34807576--34807735 Score: 248
Period size: 51 Copynumber: 3.2 Consensus size: 50
34807566 CTGATCACAT
34807576 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCAC
* *
34807627 TTATCACTTGTCACTGATCAGATAAGAGTAGCTAAGCTACCACTTATCAT
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCAC
* * *
34807677 TTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCAC
*
34807728 TTGTCACT
1 TTATCACT
34807736 AATCAAAAGT
Statistics
Matches: 101, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
50 46 0.46
51 55 0.54
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (50 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCAC
Found at i:34810290 original size:12 final size:12
Alignment explanation
Indices: 34810275--34810302 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
34810265 AAAAATAATA
34810275 AAAAATAAAAAG
1 AAAAATAAAAAG
34810287 AAAAATAAAAAG
1 AAAAATAAAAAG
34810299 AAAA
1 AAAA
34810303 TTTTTACCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.86, C:0.00, G:0.07, T:0.07
Consensus pattern (12 bp):
AAAAATAAAAAG
Found at i:34810891 original size:22 final size:19
Alignment explanation
Indices: 34810866--34810919 Score: 56
Period size: 22 Copynumber: 2.6 Consensus size: 19
34810856 TTAATTTTAA
34810866 TATTATTTATACTATTATATTT
1 TATTATTTAT--TATTATA-TT
34810888 TATTACTGTTATTATTATATT
1 TATTA-T-TTATTATTATATT
34810909 T-TTATTTATTA
1 TATTATTTATTA
34810920 GCATTTCATT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
18 6 0.20
19 1 0.03
20 3 0.10
21 3 0.10
22 12 0.40
23 1 0.03
24 4 0.13
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.65
Consensus pattern (19 bp):
TATTATTTATTATTATATT
Found at i:34811113 original size:11 final size:11
Alignment explanation
Indices: 34811092--34811131 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
34811082 CGTATATTAT
34811092 TTTTTTA-ATA
1 TTTTTTATATA
34811102 TTTTTTATATA
1 TTTTTTATATA
*
34811113 --TTATATATA
1 TTTTTTATATA
34811122 TTTTTTATAT
1 TTTTTTATAT
34811132 CATATTATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
9 8 0.32
10 7 0.28
11 10 0.40
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (11 bp):
TTTTTTATATA
Found at i:34811120 original size:18 final size:18
Alignment explanation
Indices: 34811099--34811140 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
34811089 TATTTTTTTA
*
34811099 ATAT-TTTTTATATATTAT
1 ATATATTTTT-TATATCAT
34811117 ATATATTTTTTATATCAT
1 ATATATTTTTTATATCAT
34811135 AT-TATT
1 ATATATT
34811141 CATATATCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 4 0.18
18 13 0.59
19 5 0.23
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (18 bp):
ATATATTTTTTATATCAT
Found at i:34811382 original size:3 final size:3
Alignment explanation
Indices: 34811376--34811425 Score: 66
Period size: 3 Copynumber: 16.7 Consensus size: 3
34811366 TATATGCATA
* *
34811376 TAT TAT TAT TAT TAT TAT TAT TAT CAT TA- TATT TAT TAT TAA TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT
34811421 TAT TA
1 TAT TA
34811426 GTACTAGTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
3 37 0.90
4 2 0.05
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:34812646 original size:3 final size:3
Alignment explanation
Indices: 34812632--34812667 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
34812622 AAATCTGGAT
* *
34812632 TTG TTG TCG TTG TTG TTG TTG TTG TTG CTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
34812668 AGCTGCTGGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.06, G:0.33, T:0.61
Consensus pattern (3 bp):
TTG
Found at i:34816901 original size:21 final size:21
Alignment explanation
Indices: 34816877--34816919 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
34816867 GACTGTTAAC
34816877 GTAGTTGTTCCCAATTAAACA
1 GTAGTTGTTCCCAATTAAACA
34816898 GTAGTTGTTCCCAATTAAACA
1 GTAGTTGTTCCCAATTAAACA
34816919 G
1 G
34816920 GAGAATTGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.33
Consensus pattern (21 bp):
GTAGTTGTTCCCAATTAAACA
Found at i:34836218 original size:24 final size:22
Alignment explanation
Indices: 34836160--34836220 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 22
34836150 ATTATAAAGC
34836160 TTTTTTAAA-ATTTATTTTCAA
1 TTTTTTAAATATTTATTTTCAA
* *
34836181 TTTTTAAGAAATATTTATTTTTAA
1 TTTTT--TAAATATTTATTTTCAA
34836205 TATTTTTAATATATTT
1 T-TTTTTAA-ATATTT
34836221 GGTGTATTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
21 5 0.16
23 5 0.16
24 18 0.56
25 4 0.12
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (22 bp):
TTTTTTAAATATTTATTTTCAA
Found at i:34850446 original size:44 final size:44
Alignment explanation
Indices: 34850379--34850545 Score: 178
Period size: 44 Copynumber: 3.8 Consensus size: 44
34850369 GAAGAATTTC
* * *
34850379 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 AGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCTAG
* *
34850423 AGATCTTATCTCTCTG-AGATTACAGCGGAGTAGATTGAAGCTAG
1 AGATCTTATCTCTCTGAAG-TTACAGTGGAGCAGATTGAAGCTAG
* * ** *
34850467 TA-ATCCTATCTCTCTGAAGTTACAGTGGAGCGGATT-AAAATAA
1 -AGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCTAG
* *
34850510 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGAT
1 A-GATCTTATCTCTCTGAAGTTACAGTGGAGCAGAT
34850546 CACATCAGAT
Statistics
Matches: 102, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
42 1 0.01
43 5 0.05
44 93 0.91
45 3 0.03
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (44 bp):
AGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCTAG
Found at i:34850521 original size:88 final size:90
Alignment explanation
Indices: 34850336--34850546 Score: 225
Period size: 88 Copynumber: 2.4 Consensus size: 90
34850326 ATTATACAGG
* * * * *
34850336 TCTTATCTCCCTGAGATTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTA
1 TCTTATCTCTCTGAGATTACAGTGGAGTAGATCGAAGAATGTCAGATCCTATCTCCCTGAAGTTA
* **
34850401 CAGTGGAGCAGATTGAAGCCAGAGA
66 CAGTGGAGCAGATTAAAGAAAGAGA
* * * *
34850426 TCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAAG-CTAGT-A-ATCCTATCTCTCTGAAGTT
1 TCTTATCTCTCTGAGATTACAGTGGAGTAGATCGAAGAAT-GTCAGATCCTATCTCCCTGAAGTT
* *
34850488 ACAGTGGAGCGGATTAAAATAAAG-GA
65 ACAGTGGAGCAGATT-AAAGAAAGAGA
*
34850514 TCTTATCTCTCTGA-AGTTACAGTAGAGTAGATC
1 TCTTATCTCTCTGAGA-TTACAGTGGAGTAGATC
34850547 ACATCAGATT
Statistics
Matches: 101, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
87 1 0.01
88 60 0.59
89 6 0.06
90 34 0.34
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (90 bp):
TCTTATCTCTCTGAGATTACAGTGGAGTAGATCGAAGAATGTCAGATCCTATCTCCCTGAAGTTA
CAGTGGAGCAGATTAAAGAAAGAGA
Found at i:34861562 original size:44 final size:44
Alignment explanation
Indices: 34861495--34861857 Score: 245
Period size: 44 Copynumber: 7.8 Consensus size: 44
34861485 GAAGAATTTC
* * *
34861495 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 AGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCTAG
* *
34861539 AGATCTTATCTCTCTG-AGATTACAGCGGAGTAGATTGAAGCTAG
1 AGATCTTATCTCTCTGAAG-TTACAGTGGAGCAGATTGAAGCTAG
* *
34861583 TA-ATCCTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGATTGAAGCCAG
1 -AGATCTTATCTCTCTGAAGTTACAGT-G-G-AG-------CAGATTGAAGCTAG
* *
34861637 AGATCTTATCTCTCTG-AGATTACAGCGGAGTAGATTGAAGCTAG
1 AGATCTTATCTCTCTGAAG-TTACAGTGGAGCAGATTGAAGCTAG
* *
34861681 TA-ATCCTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGATTGAAGCCAG
1 -AGATCTTATCTCTCTGAAGTTACAGT-G-G-AG-------CAGATTGAAGCTAG
* * *
34861735 AGATCTTATCTCTCTG-AGATTACAGCGGAGTAGATTGAAGATAG
1 AGATCTTATCTCTCTGAAG-TTACAGTGGAGCAGATTGAAGCTAG
* * ** *
34861779 TA-ATCCTATCTCTCTGAAGTTACAGTGGAGCGGATT-AAAATAA
1 -AGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCTAG
* *
34861822 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGAT
1 A-GATCTTATCTCTCTGAAGTTACAGTGGAGCAGAT
34861858 CACATCAGAT
Statistics
Matches: 254, Mismatches: 32, Indels: 66
0.72 0.09 0.19
Matches are distributed among these distances:
42 1 0.00
43 6 0.02
44 154 0.61
45 11 0.04
46 2 0.01
47 4 0.02
51 4 0.02
52 2 0.01
53 8 0.03
54 62 0.24
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.29
Consensus pattern (44 bp):
AGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCTAG
Found at i:34861694 original size:98 final size:98
Alignment explanation
Indices: 34861525--34861804 Score: 551
Period size: 98 Copynumber: 2.9 Consensus size: 98
34861515 TACAGTGGAG
34861525 CAGATTGAAGCCAGAGATCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAGATCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCT
34861590 ATCTCTCTGAAGTTACAGTAGAGTAGATCACAT
66 ATCTCTCTGAAGTTACAGTAGAGTAGATCACAT
34861623 CAGATTGAAGCCAGAGATCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAGATCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCT
34861688 ATCTCTCTGAAGTTACAGTAGAGTAGATCACAT
66 ATCTCTCTGAAGTTACAGTAGAGTAGATCACAT
*
34861721 CAGATTGAAGCCAGAGATCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAAGATAGTAATCCT
1 CAGATTGAAGCCAGAGATCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCT
34861786 ATCTCTCTGAAGTTACAGT
66 ATCTCTCTGAAGTTACAGT
34861805 GGAGCGGATT
Statistics
Matches: 181, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
98 181 1.00
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (98 bp):
CAGATTGAAGCCAGAGATCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCT
ATCTCTCTGAAGTTACAGTAGAGTAGATCACAT
Found at i:34861770 original size:142 final size:141
Alignment explanation
Indices: 34861624--34861893 Score: 375
Period size: 142 Copynumber: 1.9 Consensus size: 141
34861614 AGATCACATC
* * * **
34861624 AGATTGAAGCCAG-AGATCTTATCTCTCTG-AGATTACAGCGGAGTAGATTGAAGCT-AGTAATC
1 AGATTGAAGACAGTA-ATCCTATCTCTCTGAAG-TTACAGCGGAGCAGATT-AAAATAAG-AATC
*
34861686 CTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGATTGAAGCCAGAGATCTTATCTCTCTG
62 CTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGATTGAAGCCAGAGATCTTATCTCCCTG
34861751 AGATTACAGCGGAGT
127 AGATTACAGCGGAGT
* * * * *
34861766 AGATTGAAGATAGTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTA
1 AGATTGAAGACAGTAATCCTATCTCTCTGAAGTTACAGCGGAGCAGATTAAAAT-AAGAATCCTA
34861831 TCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGATTGAAGCCAGAGATCTTATCTCCCTGA
65 TCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGATTGAAGCCAGAGATCTTATCTCCCTGA
34861894 TGTTGCAGTG
Statistics
Matches: 113, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
141 3 0.03
142 105 0.93
143 5 0.04
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (141 bp):
AGATTGAAGACAGTAATCCTATCTCTCTGAAGTTACAGCGGAGCAGATTAAAATAAGAATCCTAT
CTCTCTGAAGTTACAGTAGAGTAGATCACATCAGATTGAAGCCAGAGATCTTATCTCCCTGAGAT
TACAGCGGAGT
Found at i:34863590 original size:3 final size:3
Alignment explanation
Indices: 34863582--34863616 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
34863572 GATTTAGTCC
34863582 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
34863617 CCTATTTGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:34865560 original size:23 final size:23
Alignment explanation
Indices: 34865529--34865586 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
34865519 AATCGAACTT
*
34865529 AAATGTTAAAATCTGAAAAATATA
1 AAATATTAAAATCTGAAAAATA-A
* *
34865553 AAA-ATTAAATTCTTAAAAATAA
1 AAATATTAAAATCTGAAAAATAA
*
34865575 AAATATAAAAAT
1 AAATATTAAAAT
34865587 TAAAGTTTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
22 4 0.14
23 21 0.75
24 3 0.11
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.29
Consensus pattern (23 bp):
AAATATTAAAATCTGAAAAATAA
Found at i:34865571 original size:15 final size:14
Alignment explanation
Indices: 34865545--34865590 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
34865535 TAAAATCTGA
34865545 AAAATATAAAAATT
1 AAAATATAAAAATT
* * *
34865559 AAATTCTTAAAAATA
1 AAAAT-ATAAAAATT
34865574 AAAATATAAAAATT
1 AAAATATAAAAATT
34865588 AAA
1 AAA
34865591 GTTTAAATTT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
14 14 0.56
15 11 0.44
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (14 bp):
AAAATATAAAAATT
Found at i:34865597 original size:14 final size:14
Alignment explanation
Indices: 34865545--34865597 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
34865535 TAAAATCTGA
*
34865545 AAAATATAAAAATT
1 AAAATTTAAAAATT
* *
34865559 AAATTCTTAAAAATA
1 AAAAT-TTAAAAATT
*
34865574 AAAATATAAAAATT
1 AAAATTTAAAAATT
*
34865588 AAAGTTTAAA
1 AAAATTTAAA
34865598 TTTAGGAAGT
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
14 19 0.63
15 11 0.37
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (14 bp):
AAAATTTAAAAATT
Found at i:34868546 original size:29 final size:29
Alignment explanation
Indices: 34868514--34868569 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
34868504 TGATTCTTTT
* *
34868514 TAATAATACATGGATTCAATTT-ATCTATA
1 TAATAATAAATGGACT-AATTTGATCTATA
*
34868543 TAATAGTAAATGGACTAATTTGATCTA
1 TAATAATAAATGGACTAATTTGATCTA
34868570 GCCCTAACAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 5 0.22
29 18 0.78
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.39
Consensus pattern (29 bp):
TAATAATAAATGGACTAATTTGATCTATA
Found at i:34868807 original size:28 final size:27
Alignment explanation
Indices: 34868742--34868805 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
34868732 AATGATAACC
*
34868742 TAAA-ATTTATAATAAAATTCTAAAAAT
1 TAAATATTTATGA-AAAATTCTAAAAAT
* *
34868769 TTAATATTTATGAAAAATTCTTAAATAT
1 TAAATATTTATGAAAAATTC-TAAAAAT
34868797 ATAAATATT
1 -TAAATATT
34868806 ATATATATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
27 10 0.33
28 13 0.43
29 7 0.23
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (27 bp):
TAAATATTTATGAAAAATTCTAAAAAT
Found at i:34879151 original size:16 final size:16
Alignment explanation
Indices: 34879126--34879157 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
34879116 ATTATTGGAT
*
34879126 ATAATTATATTTTTTA
1 ATAATAATATTTTTTA
34879142 ATAATAATATTTTTTA
1 ATAATAATATTTTTTA
34879158 CTTTTGGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
ATAATAATATTTTTTA
Found at i:34883218 original size:484 final size:484
Alignment explanation
Indices: 34882310--34883277 Score: 1882
Period size: 484 Copynumber: 2.0 Consensus size: 484
34882300 ATAGTAAAGG
*
34882310 ACTAAACCCATTTGTAATGAGACTATCTTGTATTTGCATTGAAGTTTCATCCCCAAAGTACCCAT
1 ACTAAACCCATTTGTAATGAGACTATCTTGTATTTGCATTGAAGTTTCATCCCCAAAGTACCCAC
34882375 AATTTTCTTCATAATACCAAGGGATACCACAAGGATTAAAAAGCCACCCATCAAAGCGGTCCACG
66 AATTTTCTTCATAATACCAAGGGATACCACAAGGATTAAAAAGCCACCCATCAAAGCGGTCCACG
34882440 TACACGAACTCGTTCCCTGACTCAGCCGACTCATAGCTCGTCCCTAAACTCGGCAGCTCCACTAT
131 TACACGAACTCGTTCCCTGACTCAGCCGACTCATAGCTCGTCCCTAAACTCGGCAGCTCCACTAT
34882505 CTCACTCAGCTCTTCCGGTGTCGATGACATATCATCCACATTCGACGATGACGACGTTGAATCCG
196 CTCACTCAGCTCTTCCGGTGTCGATGACATATCATCCACATTCGACGATGACGACGTTGAATCCG
*
34882570 AAGATGACGTGGCATCGTCGACGCTGTTGTTTTTGTTACTCAAGAACTCCATTGCGGCAGCTTTA
261 AAGATGAAGTGGCATCGTCGACGCTGTTGTTTTTGTTACTCAAGAACTCCATTGCGGCAGCTTTA
*
34882635 GCGGCGGCTGCTTGTACATCACGCGGCGAGTTAGAAGCCGGACGAGGCAACGACTCAGCGAGTTC
326 GCGGCGGCGGCTTGTACATCACGCGGCGAGTTAGAAGCCGGACGAGGCAACGACTCAGCGAGTTC
*
34882700 AGGGAAGTTAAGGATCGCCGAGTTACCTTTGATACTCAAAGCTGCCACGTCATGTGCTCGTGCTG
391 AGGGAAGTTAAGGATCGCCGAGTTACCTTTGATACTCAAAGCCGCCACGTCATGTGCTCGTGCTG
34882765 CCATTTCGGGTGTGGAGAAAGTACCTAAC
456 CCATTTCGGGTGTGGAGAAAGTACCTAAC
*
34882794 ACTAAACCCATTTGTAATGAGACTATCTTGTATTTGCATTGAAGTTTCATCCCCGAAGTACCCAC
1 ACTAAACCCATTTGTAATGAGACTATCTTGTATTTGCATTGAAGTTTCATCCCCAAAGTACCCAC
*
34882859 AATTTTCTTCATAATCCCAAGGGATACCACAAGGATTAAAAAGCCACCCATCAAAGCGGTCCACG
66 AATTTTCTTCATAATACCAAGGGATACCACAAGGATTAAAAAGCCACCCATCAAAGCGGTCCACG
34882924 TACACGAACTCGTTCCCTGACTCAGCCGACTCATAGCTCGTCCCTAAACTCGGCAGCTCCACTAT
131 TACACGAACTCGTTCCCTGACTCAGCCGACTCATAGCTCGTCCCTAAACTCGGCAGCTCCACTAT
34882989 CTCACTCAGCTCTTCCGGTGTCGATGACATATCATCCACATTCGACGATGACGACGTTGAATCCG
196 CTCACTCAGCTCTTCCGGTGTCGATGACATATCATCCACATTCGACGATGACGACGTTGAATCCG
34883054 AAGATGAAGTGGCATCGTCGACGCTGTTGTTTTTGTTACTCAAGAACTCCATTGCGGCAGCTTTA
261 AAGATGAAGTGGCATCGTCGACGCTGTTGTTTTTGTTACTCAAGAACTCCATTGCGGCAGCTTTA
34883119 GCGGCGGCGGCTTGTACATCACGCGGCGAGTTAGAAGCCGGACGAGGCAACGACTCAGCGAGTTC
326 GCGGCGGCGGCTTGTACATCACGCGGCGAGTTAGAAGCCGGACGAGGCAACGACTCAGCGAGTTC
34883184 AGGGAAGTTAAGGATCGCCGAGTTACCTTTGATACTCAAAGCCGCCACGTCATGTGCTCGTGCTG
391 AGGGAAGTTAAGGATCGCCGAGTTACCTTTGATACTCAAAGCCGCCACGTCATGTGCTCGTGCTG
34883249 CCATTTCGGGTGTGGAGAAAGTACCTAAC
456 CCATTTCGGGTGTGGAGAAAGTACCTAAC
34883278 CAGATCCGGT
Statistics
Matches: 478, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
484 478 1.00
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (484 bp):
ACTAAACCCATTTGTAATGAGACTATCTTGTATTTGCATTGAAGTTTCATCCCCAAAGTACCCAC
AATTTTCTTCATAATACCAAGGGATACCACAAGGATTAAAAAGCCACCCATCAAAGCGGTCCACG
TACACGAACTCGTTCCCTGACTCAGCCGACTCATAGCTCGTCCCTAAACTCGGCAGCTCCACTAT
CTCACTCAGCTCTTCCGGTGTCGATGACATATCATCCACATTCGACGATGACGACGTTGAATCCG
AAGATGAAGTGGCATCGTCGACGCTGTTGTTTTTGTTACTCAAGAACTCCATTGCGGCAGCTTTA
GCGGCGGCGGCTTGTACATCACGCGGCGAGTTAGAAGCCGGACGAGGCAACGACTCAGCGAGTTC
AGGGAAGTTAAGGATCGCCGAGTTACCTTTGATACTCAAAGCCGCCACGTCATGTGCTCGTGCTG
CCATTTCGGGTGTGGAGAAAGTACCTAAC
Found at i:34898355 original size:12 final size:11
Alignment explanation
Indices: 34898336--34898369 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 11
34898326 ATTAGTTAAA
34898336 AATATTATTAT
1 AATATTATTAT
34898347 AATTATTATTAT
1 AA-TATTATTAT
34898359 AATATT-TTAT
1 AATATTATTAT
34898369 A
1 A
34898370 TAACATCGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 5 0.23
11 6 0.27
12 11 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
AATATTATTAT
Found at i:34902868 original size:11 final size:11
Alignment explanation
Indices: 34902852--34902894 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
34902842 TAGAATATAT
34902852 CCCATACCTTG
1 CCCATACCTTG
* *
34902863 CCCATACATTT
1 CCCATACCTTG
*
34902874 CCCATACC-TA
1 CCCATACCTTG
34902884 CCCATACCTTG
1 CCCATACCTTG
34902895 GAAAGGTCAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
10 9 0.35
11 17 0.65
ACGTcount: A:0.23, C:0.44, G:0.05, T:0.28
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:34903494 original size:36 final size:36
Alignment explanation
Indices: 34903432--34903500 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 36
34903422 TGTTTACGGT
*
34903432 ACTATTCACGTATACGACACTATTCACGTATACGAC
1 ACTATTCACGTATACGACACTATTCACGCATACGAC
** *
34903468 ACTATTCACGTATACGGTACTGTTCACGCATAC
1 ACTATTCACGTATACGACACTATTCACGCATAC
34903501 AGTAGTTGGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.29
Consensus pattern (36 bp):
ACTATTCACGTATACGACACTATTCACGCATACGAC
Found at i:34903500 original size:18 final size:18
Alignment explanation
Indices: 34903432--34903483 Score: 104
Period size: 18 Copynumber: 2.9 Consensus size: 18
34903422 TGTTTACGGT
34903432 ACTATTCACGTATACGAC
1 ACTATTCACGTATACGAC
34903450 ACTATTCACGTATACGAC
1 ACTATTCACGTATACGAC
34903468 ACTATTCACGTATACG
1 ACTATTCACGTATACG
34903484 GTACTGTTCA
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:0.33, C:0.27, G:0.12, T:0.29
Consensus pattern (18 bp):
ACTATTCACGTATACGAC
Found at i:34907564 original size:11 final size:11
Alignment explanation
Indices: 34907548--34907590 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
34907538 TAGAATATAT
34907548 CCCATACCTTG
1 CCCATACCTTG
*
34907559 CCCATACCTTT
1 CCCATACCTTG
*
34907570 CCCATACC-TA
1 CCCATACCTTG
34907580 CCCATACCTTG
1 CCCATACCTTG
34907591 GAAAGGTCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.21, C:0.47, G:0.05, T:0.28
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:34907575 original size:22 final size:21
Alignment explanation
Indices: 34907547--34907589 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
34907537 TTAGAATATA
*
34907547 TCCCATACCTTGCCCATACCTT
1 TCCCATACC-TACCCATACCTT
34907569 TCCCATACCTACCCATACCTT
1 TCCCATACCTACCCATACCTT
34907590 GGAAAGGTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.21, C:0.47, G:0.02, T:0.30
Consensus pattern (21 bp):
TCCCATACCTACCCATACCTT
Found at i:34908718 original size:57 final size:59
Alignment explanation
Indices: 34908601--34908723 Score: 151
Period size: 57 Copynumber: 2.1 Consensus size: 59
34908591 ATTAAATGAC
* * * * * * * *
34908601 AAAAAAATATAATTGAATAGTTAAGTGATCATTTTATAATTTTTGATAATTGGGTGATT
1 AAAAAAATATAATTGAATAATTAAGTGACCATTTTACAAATGTTCATAATTGGATAATT
*
34908660 AAAAAAATAT-ATT-AATAATTAAGTGACCATTTTACAAATGTTCATAGTTGGATAATT
1 AAAAAAATATAATTGAATAATTAAGTGACCATTTTACAAATGTTCATAATTGGATAATT
34908717 AAAAAAA
1 AAAAAAA
34908724 ATCAAAAAAC
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
57 42 0.76
58 3 0.05
59 10 0.18
ACGTcount: A:0.46, C:0.04, G:0.12, T:0.37
Consensus pattern (59 bp):
AAAAAAATATAATTGAATAATTAAGTGACCATTTTACAAATGTTCATAATTGGATAATT
Found at i:34911947 original size:34 final size:35
Alignment explanation
Indices: 34911887--34911953 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
34911877 CAAACACCAG
* *
34911887 AAAATATTTTCCAGTAAGTCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
34911922 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
34911954 NNNNNNNNNN
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:34918161 original size:14 final size:14
Alignment explanation
Indices: 34918138--34918177 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
34918128 ACAGAAAAGT
*
34918138 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
34918152 AAATCATTTTACGG
1 AAAACATTTTACAG
34918166 AAAACATTTTAC
1 AAAACATTTTAC
34918178 TGCCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:34918163 original size:34 final size:35
Alignment explanation
Indices: 34918103--34918169 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
34918093 CAAACACCAG
* *
34918103 AAAATATTTTCCAGTAAGTCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
34918138 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
34918170 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:34920134 original size:12 final size:12
Alignment explanation
Indices: 34920119--34920186 Score: 62
Period size: 12 Copynumber: 6.3 Consensus size: 12
34920109 TTTTTTTAAA
34920119 TTTTAAAATAAT
1 TTTTAAAATAAT
*
34920131 TTTTAAAATACT
1 TTTTAAAATAAT
34920143 TTTTAAAAT--T
1 TTTTAAAATAAT
34920153 TTTT----TAA-
1 TTTTAAAATAAT
34920160 TTTTAAAAT-AT
1 TTTTAAAATAAT
*
34920171 TTTTAAAATACT
1 TTTTAAAATAAT
34920183 TTTT
1 TTTT
34920187 TTAATTTTTA
Statistics
Matches: 46, Mismatches: 2, Indels: 16
0.72 0.03 0.25
Matches are distributed among these distances:
6 1 0.02
7 4 0.09
10 6 0.13
11 10 0.22
12 25 0.54
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (12 bp):
TTTTAAAATAAT
Found at i:34920146 original size:41 final size:40
Alignment explanation
Indices: 34920100--34920195 Score: 147
Period size: 41 Copynumber: 2.3 Consensus size: 40
34920090 AATATATTTA
34920100 TTTTTTAATTTTTTTTAAATTTTAAAATAATTTTTAAAATAC
1 TTTTTTAATTTTTTTT-AATTTTAAAAT-ATTTTTAAAATAC
* *
34920142 TTTTTAAAATTTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTTAATTTTTTTTAATTTTAAAATATTTTTAAAATAC
34920182 TTTTTTTAATTTTT
1 -TTTTTTAATTTTT
34920196 AAATAAATTT
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
40 13 0.27
41 22 0.45
42 14 0.29
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (40 bp):
TTTTTTAATTTTTTTTAATTTTAAAATATTTTTAAAATAC
Found at i:34920165 original size:17 final size:17
Alignment explanation
Indices: 34920143--34920176 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
34920133 TTAAAATACT
*
34920143 TTTTAAAATTTTTTTAA
1 TTTTAAAATATTTTTAA
34920160 TTTTAAAATATTTTTAA
1 TTTTAAAATATTTTTAA
34920177 AATACTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTTAAAATATTTTTAA
Found at i:34922544 original size:18 final size:18
Alignment explanation
Indices: 34922521--34922560 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
34922511 TATTAATTTA
*
34922521 AAAAATA-TATAATACATC
1 AAAAATACTA-AAAACATC
34922539 AAAAATACTAAAAACATC
1 AAAAATACTAAAAACATC
34922557 AAAA
1 AAAA
34922561 TAAATATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAAATACTAAAAACATC
Found at i:34923955 original size:19 final size:20
Alignment explanation
Indices: 34923914--34923973 Score: 77
Period size: 19 Copynumber: 3.0 Consensus size: 20
34923904 TATACTAGGT
* * *
34923914 TTAATTATAATTAAACTTAA
1 TTAATTATACTTAATCTTCA
34923934 TTAATTA-ACTTAATCTTCA
1 TTAATTATACTTAATCTTCA
34923953 TTAATTATACATTAATCTTCA
1 TTAATTATAC-TTAATCTTCA
34923974 ATTAGTTAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
19 16 0.46
20 9 0.26
21 10 0.29
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.47
Consensus pattern (20 bp):
TTAATTATACTTAATCTTCA
Found at i:34925421 original size:40 final size:40
Alignment explanation
Indices: 34925375--34925465 Score: 119
Period size: 40 Copynumber: 2.3 Consensus size: 40
34925365 GTCATGTCTT
* * *
34925375 GCACACGGCCATGCCTTTGTCGATCACAAGGTCGTGTCTA
1 GCACACGGCCATACCTTCGTCGATCACAAGGTCGTATCTA
* * * *
34925415 GTACACGGCCATACCTTCGTTGATCACACGGTCGTATTTA
1 GCACACGGCCATACCTTCGTCGATCACAAGGTCGTATCTA
34925455 GCACACGGCCA
1 GCACACGGCCA
34925466 CCCACATGGC
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.22, C:0.31, G:0.23, T:0.24
Consensus pattern (40 bp):
GCACACGGCCATACCTTCGTCGATCACAAGGTCGTATCTA
Found at i:34928597 original size:46 final size:45
Alignment explanation
Indices: 34928538--34928670 Score: 151
Period size: 46 Copynumber: 2.9 Consensus size: 45
34928528 ACAGGACAGA
* *
34928538 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* * *
34928584 ACAGGATTGAGCCATGTAAGTCCATATT-ATAGATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * *
34928628 ACAGGAATAATTCATGTAAGTCCATGTCAAAAATATGGCATTG
1 ACAGGAATGAGCCATGTAAGTCCATAT-TAAAATATGGCATTG
34928671 ACAGAATATT
Statistics
Matches: 72, Mismatches: 13, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
44 35 0.49
46 37 0.51
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:34935864 original size:12 final size:12
Alignment explanation
Indices: 34935834--34935866 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
34935824 TATATATTTT
34935834 AAAATT-ATATA
1 AAAATTAATATA
34935845 AAAA-TAATATA
1 AAAATTAATATA
34935856 AAAATTAATAT
1 AAAATTAATAT
34935867 GGGCGGGCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:34936200 original size:32 final size:31
Alignment explanation
Indices: 34936164--34936232 Score: 102
Period size: 32 Copynumber: 2.2 Consensus size: 31
34936154 TTTTGTAGGT
*
34936164 CGTGTGGGTAGTCCGTGTGAAACCATGCAGAC
1 CGTGTGGGTAGACCGTGTGAAACCATGCA-AC
*
34936196 CGTGTGGGTAGACCGTGTGAAATCATGCAAC
1 CGTGTGGGTAGACCGTGTGAAACCATGCAAC
34936227 CTGTGT
1 C-GTGT
34936233 AGCTTGGCCG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
31 3 0.09
32 31 0.91
ACGTcount: A:0.22, C:0.20, G:0.33, T:0.25
Consensus pattern (31 bp):
CGTGTGGGTAGACCGTGTGAAACCATGCAAC
Found at i:34936244 original size:32 final size:32
Alignment explanation
Indices: 34936176--34936247 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 32
34936166 TGTGGGTAGT
* *
34936176 CCGTGTGAAACCATGCAGACCGTGTGGGTAGA
1 CCGTGTGAAACCATGCAGACCGTGTAGCTAGA
* * *
34936208 CCGTGTGAAATCATGCA-ACCTGTGTAGCTTGG
1 CCGTGTGAAACCATGCAGACC-GTGTAGCTAGA
34936240 CCGTGTGA
1 CCGTGTGA
34936248 GATTTTGCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
31 3 0.09
32 31 0.91
ACGTcount: A:0.22, C:0.22, G:0.32, T:0.24
Consensus pattern (32 bp):
CCGTGTGAAACCATGCAGACCGTGTAGCTAGA
Found at i:34938805 original size:152 final size:152
Alignment explanation
Indices: 34938609--34938913 Score: 567
Period size: 152 Copynumber: 2.0 Consensus size: 152
34938599 GGACTGTTCG
34938609 TGACATTCCCTTATTCAGATGCAAGTTTCAGCTCAGAAAGGGAAACAGAGACTGGTTTGTGCAAT
1 TGACATTCCCTTATTCAGATGCAAGTTTCAGCTCAGAAAGGGAAACAGAGACTGGTTTGTGCAAT
*
34938674 TAGTATTGTGAGGATTGAGACGTATTTGGCAGCAATACAACTACATTT-AGAATTATACCCTACA
66 TAGCATTGTGAGGATTGAGACGTATTTGGCAGCAATACAACTACATTTGA-AATTATACCCTACA
*
34938738 TTGATTAAGTGTTTGGTGGTACT
130 TTAATTAAGTGTTTGGTGGTACT
34938761 TGACATTCCCTTATTCAGATGCAAGTTTCAGCTCAGAAAGGGAAACAGAGACTGGTTTGTGCAAT
1 TGACATTCCCTTATTCAGATGCAAGTTTCAGCTCAGAAAGGGAAACAGAGACTGGTTTGTGCAAT
*
34938826 TAGCATTGTGAGGATTGAGACGTATTTGGCAGCAATACAACTACATTTGAAATTATACCCTGCAT
66 TAGCATTGTGAGGATTGAGACGTATTTGGCAGCAATACAACTACATTTGAAATTATACCCTACAT
34938891 TAATTAAGTGTTTGGTGGTACT
131 TAATTAAGTGTTTGGTGGTACT
34938913 T
1 T
34938914 AAATATTTCA
Statistics
Matches: 149, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
152 148 0.99
153 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.32
Consensus pattern (152 bp):
TGACATTCCCTTATTCAGATGCAAGTTTCAGCTCAGAAAGGGAAACAGAGACTGGTTTGTGCAAT
TAGCATTGTGAGGATTGAGACGTATTTGGCAGCAATACAACTACATTTGAAATTATACCCTACAT
TAATTAAGTGTTTGGTGGTACT
Found at i:34940294 original size:29 final size:29
Alignment explanation
Indices: 34940239--34940312 Score: 71
Period size: 29 Copynumber: 2.6 Consensus size: 29
34940229 CTAGCCAGCA
* *
34940239 ACCACACGACCGTGTGGTGGACTGTGTGTG
1 ACCATACGACCGTGTGCTGGACTGTGTG-G
*
34940269 -CCATACGACCGTGTGCTAGGTC-GTGTGG
1 ACCATACGACCGTGTGCT-GGACTGTGTGG
* *
34940297 ATCATACGATCGTGTG
1 ACCATACGACCGTGTG
34940313 TATTTTTGTA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
28 1 0.03
29 33 0.89
30 3 0.08
ACGTcount: A:0.18, C:0.23, G:0.34, T:0.26
Consensus pattern (29 bp):
ACCATACGACCGTGTGCTGGACTGTGTGG
Found at i:34942602 original size:12 final size:12
Alignment explanation
Indices: 34942580--34942610 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
34942570 TTGTACATGT
34942580 TTATACCCTACAC
1 TTAT-CCCTACAC
34942593 TTATCCCTACAC
1 TTATCCCTACAC
34942605 TTATCC
1 TTATCC
34942611 ATATTTACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.78
13 4 0.22
ACGTcount: A:0.26, C:0.39, G:0.00, T:0.35
Consensus pattern (12 bp):
TTATCCCTACAC
Found at i:34942737 original size:5 final size:5
Alignment explanation
Indices: 34942727--34942759 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
34942717 CTTAAAACAT
*
34942727 TTCAA TTCAA TTCAA TTCAA TTCAA TCCAA TTC
1 TTCAA TTCAA TTCAA TTCAA TTCAA TTCAA TTC
34942760 CATTTCATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.36, C:0.24, G:0.00, T:0.39
Consensus pattern (5 bp):
TTCAA
Found at i:34946226 original size:40 final size:40
Alignment explanation
Indices: 34946171--34946250 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
34946161 TTGCATACAA
* *
34946171 ATTTTTCTCACAAAGAGTTTGTGTAATTATCCTCAAGTGT
1 ATTTTTCTCACAAAGAGTTTGCGTAATAATCCTCAAGTGT
34946211 ATTTTTCTCACAAAGAGTTTGCGTAATAATCCTCAAGTGT
1 ATTTTTCTCACAAAGAGTTTGCGTAATAATCCTCAAGTGT
34946251 TCCTCGTGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.40
Consensus pattern (40 bp):
ATTTTTCTCACAAAGAGTTTGCGTAATAATCCTCAAGTGT
Found at i:34953730 original size:18 final size:19
Alignment explanation
Indices: 34953709--34953745 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
34953699 AATCTATTTT
34953709 ATCAAAAT-AAAATAAAAA
1 ATCAAAATCAAAATAAAAA
*
34953727 ATCAAAATCAATATAAAAA
1 ATCAAAATCAAAATAAAAA
34953746 TACCAAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.73, C:0.08, G:0.00, T:0.19
Consensus pattern (19 bp):
ATCAAAATCAAAATAAAAA
Found at i:34960675 original size:6 final size:6
Alignment explanation
Indices: 34960635--34960674 Score: 71
Period size: 6 Copynumber: 6.7 Consensus size: 6
34960625 TCCTCTTATC
*
34960635 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTAA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
34960675 ATTATTTTCT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:34962544 original size:28 final size:28
Alignment explanation
Indices: 34962493--34962640 Score: 174
Period size: 28 Copynumber: 5.3 Consensus size: 28
34962483 CTTTAGAGTA
*
34962493 CGCCACAATGGCTTTCC--TTTCATAGAT
1 CGCCACAAAGGC-TTCCTTTTTCATAGAT
* * *
34962520 CGCTATAAAGGCTTCCTTTTTCATAAAT
1 CGCCACAAAGGCTTCCTTTTTCATAGAT
* * *
34962548 CACCACGAAGGCTTCTTTTTTCATAGAT
1 CGCCACAAAGGCTTCCTTTTTCATAGAT
* * *
34962576 TGCCACAAAGGCTTCTTTTTTCATAAAT
1 CGCCACAAAGGCTTCCTTTTTCATAGAT
34962604 CGCCACAAAGGCTTCCTTTTTCATAGAT
1 CGCCACAAAGGCTTCCTTTTTCATAGAT
*
34962632 TGCCACAAA
1 CGCCACAAA
34962641 TACTTTTTTT
Statistics
Matches: 101, Mismatches: 18, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
26 4 0.04
27 9 0.09
28 88 0.87
ACGTcount: A:0.27, C:0.26, G:0.13, T:0.34
Consensus pattern (28 bp):
CGCCACAAAGGCTTCCTTTTTCATAGAT
Found at i:34972261 original size:13 final size:13
Alignment explanation
Indices: 34972226--34972265 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
34972216 TTAAAGTGGA
*
34972226 AATTTTGAAAAAT
1 AATTTTAAAAAAT
*
34972239 AATATGTAAAAAAT
1 AAT-TTTAAAAAAT
34972253 AATTTTAAAAAAT
1 AATTTTAAAAAAT
34972266 TCGAAGTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (13 bp):
AATTTTAAAAAAT
Found at i:34974072 original size:18 final size:19
Alignment explanation
Indices: 34974041--34974085 Score: 58
Period size: 17 Copynumber: 2.4 Consensus size: 19
34974031 AAACCTTACT
*
34974041 AAGATAAAAATCCT-GTGA
1 AAGAAAAAAATCCTAGTGA
34974059 AA-AAAAAAATTCCTAGTGA
1 AAGAAAAAAA-TCCTAGTGA
34974078 AAGAAAAA
1 AAGAAAAA
34974086 GAGTACATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 6 0.26
18 6 0.26
19 6 0.26
20 5 0.22
ACGTcount: A:0.60, C:0.09, G:0.13, T:0.18
Consensus pattern (19 bp):
AAGAAAAAAATCCTAGTGA
Found at i:34980856 original size:16 final size:17
Alignment explanation
Indices: 34980835--34980894 Score: 63
Period size: 16 Copynumber: 3.6 Consensus size: 17
34980825 GAATTTACTT
34980835 ATTATAT-AAGTAAATA
1 ATTATATAAAGTAAATA
*
34980851 ATTATATAAAGTAAATT
1 ATTATATAAAGTAAATA
* *
34980868 A-TAT-TAAATTATATA
1 ATTATATAAAGTAAATA
34980883 ATTATAATAAAG
1 ATTAT-ATAAAG
34980895 AATGAATAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
15 9 0.26
16 13 0.37
17 9 0.26
18 4 0.11
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (17 bp):
ATTATATAAAGTAAATA
Found at i:34980869 original size:30 final size:33
Alignment explanation
Indices: 34980835--34980894 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 33
34980825 GAATTTACTT
34980835 ATTATA-T-AAGTAAATAATTAT-ATAAAGTAA
1 ATTATATTAAAGTAAATAATTATAATAAAGTAA
* *
34980865 ATTATATTAAATTATATAATTATAATAAAG
1 ATTATATTAAAGTAAATAATTATAATAAAG
34980895 AATGAATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 6 0.24
31 1 0.04
32 12 0.48
33 6 0.24
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (33 bp):
ATTATATTAAAGTAAATAATTATAATAAAGTAA
Found at i:34980992 original size:12 final size:12
Alignment explanation
Indices: 34980975--34981004 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
34980965 AAAGAAAGAG
34980975 GAAAAATGGAAA
1 GAAAAATGGAAA
34980987 GAAAAA-GGAAA
1 GAAAAATGGAAA
34980998 GAAAAAT
1 GAAAAAT
34981005 TTAGGGTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.70, C:0.00, G:0.23, T:0.07
Consensus pattern (12 bp):
GAAAAATGGAAA
Found at i:34985606 original size:13 final size:12
Alignment explanation
Indices: 34985574--34985611 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
34985564 GTGTATAGAT
34985574 AAATAAAAAGAG
1 AAATAAAAAGAG
34985586 AAATAAAAAGA-
1 AAATAAAAAGAG
34985597 ATAATAAAAAAGAG
1 A-AAT-AAAAAGAG
34985611 A
1 A
34985612 GAATTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 1 0.04
12 14 0.61
13 7 0.30
14 1 0.04
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (12 bp):
AAATAAAAAGAG
Found at i:34986433 original size:17 final size:16
Alignment explanation
Indices: 34986411--34986458 Score: 62
Period size: 15 Copynumber: 3.0 Consensus size: 16
34986401 CACGACTTAC
34986411 TATTATATATATATTAT
1 TATTATATATATATT-T
*
34986428 TATTATGTATAT-TTT
1 TATTATATATATATTT
*
34986443 TAGTATATATATATTT
1 TATTATATATATATTT
34986459 ATGAAGTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 11 0.41
16 5 0.19
17 11 0.41
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.60
Consensus pattern (16 bp):
TATTATATATATATTT
Found at i:34986502 original size:18 final size:20
Alignment explanation
Indices: 34986479--34986517 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
34986469 ATCAACAGTT
34986479 TTTTTAACAT-TAT-TATTA
1 TTTTTAACATGTATATATTA
*
34986497 TTTTTAATATGTATATATTA
1 TTTTTAACATGTATATATTA
34986517 T
1 T
34986518 GTATATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 3 0.17
20 6 0.33
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (20 bp):
TTTTTAACATGTATATATTA
Found at i:34986572 original size:20 final size:19
Alignment explanation
Indices: 34986511--34986575 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 19
34986501 TAATATGTAT
34986511 ATATTATGTATATATTTTA
1 ATATTATGTATATATTTTA
* *
34986530 ATACTACAT-TATATATATT-
1 ATA-T-TATGTATATATTTTA
34986549 ATATTATGTATATATTTCTA
1 ATATTATGTATATATTT-TA
34986569 ATATTAT
1 ATATTAT
34986576 ATATTAAGTA
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
17 2 0.05
18 9 0.24
19 7 0.19
20 17 0.46
21 2 0.05
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (19 bp):
ATATTATGTATATATTTTA
Found at i:34986576 original size:16 final size:16
Alignment explanation
Indices: 34986537--34986580 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
34986527 TTAATACTAC
*
34986537 ATTATATATATTATATT
1 ATTATATAT-TTATAAT
*
34986554 ATGTATATATTTCTAAT
1 AT-TATATATTTATAAT
34986571 ATTATATATT
1 ATTATATATT
34986581 AAGTATTTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 8 0.33
17 9 0.38
18 7 0.29
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (16 bp):
ATTATATATTTATAAT
Found at i:34986591 original size:23 final size:23
Alignment explanation
Indices: 34986544--34986604 Score: 72
Period size: 23 Copynumber: 2.6 Consensus size: 23
34986534 TACATTATAT
34986544 ATATTATATTATGTATATATTTCTA
1 ATATTATA-TAT-TATATATTTCTA
34986569 ATATTATATATTA-AGTATTTCTA
1 ATATTATATATTATA-TATTTCTA
*
34986592 ATATCAT-TATTAT
1 ATATTATATATTAT
34986605 TTATATATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
22 6 0.18
23 16 0.48
24 3 0.09
25 8 0.24
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (23 bp):
ATATTATATATTATATATTTCTA
Found at i:34986707 original size:24 final size:22
Alignment explanation
Indices: 34986680--34986798 Score: 98
Period size: 23 Copynumber: 5.0 Consensus size: 22
34986670 CTAATGTGTA
*
34986680 TATATATATATATCGTATATGTTT
1 TATATATAT-TAT-GTATATATTT
34986704 TATATATATTATGTATATATTT
1 TATATATATTATGTATATATTT
*
34986726 TCA-ATATTATTA-GTTATATTTTT
1 T-ATATA-TATTATG-TATATATTT
*
34986749 TATATACTATTCCATGTACATATTTT
1 TATATA-TATT--ATGTATATA-TTT
*
34986775 TATATCATCTTATGTATATATTT
1 TATAT-ATATTATGTATATATTT
34986798 T
1 T
34986799 TAAACACTAT
Statistics
Matches: 79, Mismatches: 7, Indels: 19
0.75 0.07 0.18
Matches are distributed among these distances:
22 15 0.19
23 29 0.37
24 17 0.22
25 5 0.06
26 12 0.15
27 1 0.01
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (22 bp):
TATATATATTATGTATATATTT
Found at i:34986799 original size:24 final size:23
Alignment explanation
Indices: 34986680--34986818 Score: 106
Period size: 24 Copynumber: 5.8 Consensus size: 23
34986670 CTAATGTGTA
*
34986680 TATATATATATATCGTATAT-GTTT
1 TATATATAT-TAT-GTATATATTTT
34986704 TATATATATTATGTATATATTTT
1 TATATATATTATGTATATATTTT
*
34986727 CA-ATATTATTA-GT-TATATTTTT
1 TATATA-TATTATGTATATA-TTTT
*
34986749 TATATACTATTCCATGTACATATTTT
1 TATATA-TATT--ATGTATATATTTT
*
34986775 TATATCATCTTATGTATATATTTT
1 TATAT-ATATTATGTATATATTTT
* * *
34986799 TAAACACTATTATATATATA
1 TATATA-TATTATGTATATA
34986819 CATATTTTTA
Statistics
Matches: 94, Mismatches: 11, Indels: 20
0.75 0.09 0.16
Matches are distributed among these distances:
21 4 0.04
22 16 0.17
23 20 0.21
24 35 0.37
25 1 0.01
26 14 0.15
27 4 0.04
ACGTcount: A:0.35, C:0.07, G:0.04, T:0.54
Consensus pattern (23 bp):
TATATATATTATGTATATATTTT
Found at i:34987155 original size:22 final size:23
Alignment explanation
Indices: 34987107--34987155 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
34987097 TATATGTTCA
* *
34987107 TTTTATATATATTATGTATATAT
1 TTTTATATATATTATGTATACAC
*
34987130 TTTTGTAT-TATTATGTATACAC
1 TTTTATATATATTATGTATACAC
34987152 TTTT
1 TTTT
34987156 CATTCCTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 16 0.70
23 7 0.30
ACGTcount: A:0.29, C:0.04, G:0.06, T:0.61
Consensus pattern (23 bp):
TTTTATATATATTATGTATACAC
Found at i:35001137 original size:75 final size:73
Alignment explanation
Indices: 35001049--35001262 Score: 295
Period size: 75 Copynumber: 2.9 Consensus size: 73
35001039 TATTTCTGTT
* * *
35001049 TCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATT
1 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATT
35001114 TCTACCTT-
66 TCT-CCTTG
* * * *
35001122 TCAAAAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCTTCAGGACACGCTGAGGTAATTTCAA
1 TC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAA
**
35001187 TTTCTGTTTG
64 TTTCTCCTTG
* *
35001197 TCAAAAATCAACTCATATTGCGAGAGGTGAGTGGAGCCTCAGGGCACGCTGAGGTATTTTCAATT
1 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATT
35001262 T
66 T
35001263 TTAATTTTCA
Statistics
Matches: 123, Mismatches: 15, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
73 60 0.49
74 2 0.02
75 61 0.50
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.30
Consensus pattern (73 bp):
TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATT
TCTCCTTG
Found at i:35001245 original size:73 final size:71
Alignment explanation
Indices: 35001040--35001262 Score: 302
Period size: 73 Copynumber: 3.1 Consensus size: 71
35001030 AATGTTTTTT
* * *
35001040 ATTTCTGTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
1 ATTTCTGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA
35001105 TTTTCA
66 TTTTCA
* * * *
35001111 ATTTCTACCTTTCAAAAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCTTCAGGACACGCTGA
1 ATTTCT--GTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
*
35001176 GGTAATTTCA
62 GGTATTTTCA
* *
35001186 ATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTGGAGCCTCAGGGCACGCTGAGG
1 ATTTCTG-TT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
35001251 TATTTTCA
64 TATTTTCA
35001259 ATTT
1 ATTT
35001263 TTAATTTTCA
Statistics
Matches: 131, Mismatches: 15, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
71 6 0.05
73 62 0.47
74 2 0.02
75 61 0.47
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (71 bp):
ATTTCTGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA
TTTTCA
Found at i:35001341 original size:89 final size:87
Alignment explanation
Indices: 35001181--35001548 Score: 311
Period size: 89 Copynumber: 4.2 Consensus size: 87
35001171 GCTGAGGTAA
* **
35001181 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTGGAGCCTCAGGGCACGC
1 TTTCAATTTCTGTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAACACGC
*
35001246 TGAGGTATTTTCAATTT-T-TAAT
65 TAAGGTATTTTCAATTTCTGT-AT
*
35001268 TTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAACAT
1 TTTCAATTTCTG-TTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAACAC
*
35001333 GCTAAGGTATTTTCAATTTCTGTTT
63 GCTAAGGTATTTTCAATTTCTGTAT
* * * * * * *
35001358 TTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGCTGATTTGAGCCTCGGGTCACAT
1 TTTCAATTTCT-GTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AG-AACAC
* ** *
35001423 G-TCGAGGTATTTTCAAAATCTG-CT
63 GCT-AAGGTATTTTCAATTTCTGTAT
** ** * ** **
35001447 TTTCAAACTAAGTTTT-AAAAA-CTAACTCATATTGTGAGAGGTGAGTTGAGCCTTGGCTCACGT
1 TTTCAATTTCTGTTTTCAAAAATC-AACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAACAC--
* *
35001510 GCTGAGCTATTTTCAATTTCTGT-T
63 GCTAAGGTATTTTCAATTTCTGTAT
*
35001534 TTT-AATGTCTGTTTT
1 TTTCAATTTCTGTTTT
35001549 TAAAGAGTCA
Statistics
Matches: 234, Mismatches: 33, Indels: 29
0.79 0.11 0.10
Matches are distributed among these distances:
85 3 0.01
86 11 0.05
87 67 0.29
88 44 0.19
89 70 0.30
90 38 0.16
91 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.38
Consensus pattern (87 bp):
TTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAACACGCT
AAGGTATTTTCAATTTCTGTAT
Found at i:35001409 original size:88 final size:87
Alignment explanation
Indices: 35001181--35001413 Score: 315
Period size: 89 Copynumber: 2.6 Consensus size: 87
35001171 GCTGAGGTAA
* * **
35001181 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTGGAGCCTCAGGGCACGC
1 TTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAACACGC
*
35001246 TGAGGTATTTTCAATTTTTAAT
66 TAAGGTATTTTCAATTTTTAAT
* *
35001268 TTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAACAT
1 TTTCAATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAACAC
*
35001333 GCTAAGGTATTTTCAATTTCTGT-TT
64 GCTAAGGTATTTTCAATTT-T-TAAT
* * * *
35001358 TTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGCTGATTTGAGCCTC
1 TTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
35001414 GGGTCACATG
Statistics
Matches: 129, Mismatches: 13, Indels: 7
0.87 0.09 0.05
Matches are distributed among these distances:
87 16 0.12
88 36 0.28
89 59 0.46
90 17 0.13
91 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (87 bp):
TTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAACACGC
TAAGGTATTTTCAATTTTTAAT
Found at i:35001523 original size:177 final size:176
Alignment explanation
Indices: 35001181--35001536 Score: 407
Period size: 177 Copynumber: 2.0 Consensus size: 176
35001171 GCTGAGGTAA
* * *
35001181 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTGGAGCCTCAGGGCACGC
1 TTTCAATTTATATTTGTCAAAAATCAACTCATATTGCGAGAGCTGAGTGGAGCCTCAGGGCACGC
** * ** **
35001246 TGAGGTATTTTCAATTTTTAATTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGA
66 TGAGGTATTTTCAAAATCTAATTTTCAAACTAAGCTTTT-AAAAAAATCAACTCATATTGCGAGA
*
35001311 GGTGAGTTGAGCCTCAGAACATGCTAAGGTATTTTCAATTTCTGTTT
130 GGTGAGTTGAGCCTCAGAACATGCTAAGCTATTTTCAATTTCTGTTT
* * *
35001358 TTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGCTGATTTGAGCCTC-GGGTCACA
1 TTTCAATTTATATTTGTCAAAAATCAACTCATATTGCGAGAGCTGAGTGGAGCCTCAGGG-CAC-
** * *
35001422 TG-TCGAGGTATTTTCAAAATCTGCTTTTCAAACTAAG-TTTT-AAAAACT-AACTCATATTGTG
64 -GCT-GAGGTATTTTCAAAATCTAATTTTCAAACTAAGCTTTTAAAAAAATCAACTCATATTGCG
** * * *
35001483 AGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAATTTCTGTTT
127 AGAGGTGAGTTGAGCCTCAG--AACATGCTAAGCTATTTTCAATTTCTGTTT
35001535 TT
1 TT
35001537 AATGTCTGTT
Statistics
Matches: 150, Mismatches: 23, Indels: 12
0.81 0.12 0.06
Matches are distributed among these distances:
175 30 0.20
176 9 0.06
177 81 0.54
178 5 0.03
179 25 0.17
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.38
Consensus pattern (176 bp):
TTTCAATTTATATTTGTCAAAAATCAACTCATATTGCGAGAGCTGAGTGGAGCCTCAGGGCACGC
TGAGGTATTTTCAAAATCTAATTTTCAAACTAAGCTTTTAAAAAAATCAACTCATATTGCGAGAG
GTGAGTTGAGCCTCAGAACATGCTAAGCTATTTTCAATTTCTGTTT
Found at i:35001550 original size:87 final size:87
Alignment explanation
Indices: 35001181--35001552 Score: 353
Period size: 87 Copynumber: 4.2 Consensus size: 87
35001171 GCTGAGGTAA
* * *
35001181 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTGGAGCCTCAGGGCAC--
1 TTTCAATTTCTGTTT-TTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTCACAT
* **
35001244 GCTGAGGTATTTTCAATTTTTAAT
64 GCTGAGGTATTTTCAATTTCTGCT
* * *
35001268 TTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-AACA
1 TTTCAATTTCTG-TTTT--TAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTCACA
* *
35001332 TGCTAAGGTATTTTCAATTTCTGTTT
63 TGCTGAGGTATTTTCAATTTCTG-CT
* * * *
35001358 TTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGCTGATTTGAGCCTCGGGTCACAT
1 TTTCAATTTCTGTTTTT-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTCACAT
**
35001423 G-TCGAGGTATTTTCAAAATCTGCT
64 GCT-GAGGTATTTTCAATTTCTGCT
** ** * * *
35001447 TTTCAAACTAAG-TTTTAAAAA-CTAACTCATATTGTGAGAGGTGAGTTGAGCCTTGGCTCACGT
1 TTTCAATTTCTGTTTTTAAAAATC-AACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-TCACAT
*
35001510 GCTGAGCTATTTTCAATTTCTG-T
64 GCTGAGGTATTTTCAATTTCTGCT
* *
35001533 TTTTAATGTCTGTTTTTAAA
1 TTTCAATTTCTGTTTTTAAA
35001553 GAGTCAATTC
Statistics
Matches: 235, Mismatches: 36, Indels: 28
0.79 0.12 0.09
Matches are distributed among these distances:
86 11 0.05
87 76 0.32
88 45 0.19
89 71 0.30
90 32 0.14
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.38
Consensus pattern (87 bp):
TTTCAATTTCTGTTTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTCACATGC
TGAGGTATTTTCAATTTCTGCT
Found at i:35002607 original size:13 final size:12
Alignment explanation
Indices: 35002575--35002612 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
35002565 GTGTATAGAT
35002575 AAATAAAAAGAG
1 AAATAAAAAGAG
35002587 AAATAAAAAGA-
1 AAATAAAAAGAG
35002598 ATAATAAAAAAGAG
1 A-AAT-AAAAAGAG
35002612 A
1 A
35002613 GAATTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 1 0.04
12 14 0.61
13 7 0.30
14 1 0.04
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (12 bp):
AAATAAAAAGAG
Found at i:35003514 original size:18 final size:20
Alignment explanation
Indices: 35003491--35003529 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
35003481 ATCAATAATT
35003491 TTTTTAACAT-TAT-TATTA
1 TTTTTAACATGTATATATTA
*
35003509 TTTTTAATATGTATATATTA
1 TTTTTAACATGTATATATTA
35003529 T
1 T
35003530 GTATATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 3 0.17
20 6 0.33
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (20 bp):
TTTTTAACATGTATATATTA
Found at i:35003576 original size:20 final size:20
Alignment explanation
Indices: 35003522--35003591 Score: 63
Period size: 20 Copynumber: 3.4 Consensus size: 20
35003512 TTAATATGTA
35003522 TATATTATGTATATATTTTAAT
1 TATATTATGTATATATTTT--T
*
35003544 ACTACATTA--TATATATTTTT
1 --TATATTATGTATATATTTTT
*
35003564 TATATTATGTATATATTTCT
1 TATATTATGTATATATTTTT
*
35003584 AATATTAT
1 TATATTAT
35003592 ATATTAAGTA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.15
20 18 0.45
22 10 0.25
24 6 0.15
ACGTcount: A:0.36, C:0.04, G:0.03, T:0.57
Consensus pattern (20 bp):
TATATTATGTATATATTTTT
Found at i:35003606 original size:23 final size:22
Alignment explanation
Indices: 35003577--35003619 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
35003567 ATTATGTATA
*
35003577 TATTTCTAATATTATATATTAAG
1 TATTTCTAATATCAT-TATTAAG
35003600 TATTTCTAATATCATTATTA
1 TATTTCTAATATCATTATTA
35003620 TTTATATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.53
Consensus pattern (22 bp):
TATTTCTAATATCATTATTAAG
Found at i:35003715 original size:22 final size:22
Alignment explanation
Indices: 35003690--35003804 Score: 92
Period size: 23 Copynumber: 5.0 Consensus size: 22
35003680 ATTTCTAATG
*
35003690 TATATATA-TATCGTATATGTTT
1 TATATATATTAT-GTATATATTT
35003712 TATATATATTATGTATATATTT
1 TATATATATTATGTATATATTT
*
35003734 TCA-ATATTATTA-GTTATATTTTT
1 T-ATATA-TATTATG-TATATATTT
*
35003757 TATATACTATTCCATGTACATATTTT
1 TATATA-TATT--ATGTATATA-TTT
*
35003783 TATATCATCTTATGTATATATT
1 TATAT-ATATTATGTATATATT
35003805 CTTAAACACT
Statistics
Matches: 76, Mismatches: 7, Indels: 19
0.75 0.07 0.19
Matches are distributed among these distances:
22 23 0.30
23 27 0.36
24 8 0.11
25 5 0.07
26 12 0.16
27 1 0.01
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (22 bp):
TATATATATTATGTATATATTT
Found at i:35003804 original size:24 final size:23
Alignment explanation
Indices: 35003690--35003804 Score: 96
Period size: 22 Copynumber: 4.9 Consensus size: 23
35003680 ATTTCTAATG
*
35003690 TATATATA-TATCGTATAT-GTTT
1 TATATATATTAT-GTATATATTTT
35003712 TATATATATTATGTATATATTTT
1 TATATATATTATGTATATATTTT
*
35003735 CA-ATATTATTA-GT-TATATTTTT
1 TATATA-TATTATGTATATA-TTTT
*
35003757 TATATACTATTCCATGTACATATTTT
1 TATATA-TATT--ATGTATATATTTT
*
35003783 TATATCATCTTATGTATATATT
1 TATAT-ATATTATGTATATATT
35003805 CTTAAACACT
Statistics
Matches: 76, Mismatches: 7, Indels: 18
0.75 0.07 0.18
Matches are distributed among these distances:
21 4 0.05
22 24 0.32
23 19 0.25
24 10 0.13
25 1 0.01
26 14 0.18
27 4 0.05
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (23 bp):
TATATATATTATGTATATATTTT
Found at i:35004031 original size:22 final size:23
Alignment explanation
Indices: 35004013--35004055 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
35004003 CACTTATTAT
35004013 TTTATTTT-AATATTATTATGTA
1 TTTATTTTCAATATTATTATGTA
35004035 TTTATTTTCAATA-TA-TATGTA
1 TTTATTTTCAATATTATTATGTA
35004056 CATATTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 6 0.30
22 10 0.50
23 4 0.20
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (23 bp):
TTTATTTTCAATATTATTATGTA
Found at i:35004055 original size:21 final size:22
Alignment explanation
Indices: 35004013--35004154 Score: 74
Period size: 23 Copynumber: 6.0 Consensus size: 22
35004003 CACTTATTAT
35004013 TTTATTTTAATATTATTATGTA
1 TTTATTTTAATATTATTATGTA
**
35004035 TTTATTTTCAATATATATGTACATA
1 TTTATTTT-AATAT-TAT-TATGTA
* *
35004060 TTTA-TTAATATATTTTTATGTTA
1 TTTATTTTA-ATATTATTATG-TA
* * *
35004083 TTAATATTTATAATAGATATTGTATA
1 TT--TATTT-TAATA-TTATTATGTA
35004109 TGTTCA-TTT-ATATATATTATGTA
1 T-TT-ATTTTAATAT-TATTATGTA
* *
35004132 TATATTTTAGTATTATTATGTA
1 TTTATTTTAATATTATTATGTA
35004154 T
1 T
35004155 ACACTTTTTA
Statistics
Matches: 89, Mismatches: 16, Indels: 30
0.66 0.12 0.22
Matches are distributed among these distances:
21 1 0.01
22 24 0.27
23 26 0.29
24 10 0.11
25 13 0.15
26 9 0.10
27 6 0.07
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.58
Consensus pattern (22 bp):
TTTATTTTAATATTATTATGTA
Found at i:35004061 original size:25 final size:22
Alignment explanation
Indices: 35004013--35004065 Score: 61
Period size: 25 Copynumber: 2.3 Consensus size: 22
35004003 CACTTATTAT
**
35004013 TTTATTTTAATATTATTATGTA
1 TTTATTTTAATATTATTACATA
35004035 TTTATTTTCAATATATATGTACATA
1 TTTATTTT-AATAT-TAT-TACATA
35004060 TTTATT
1 TTTATT
35004066 AATATATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 8 0.31
23 5 0.19
24 3 0.12
25 10 0.38
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (22 bp):
TTTATTTTAATATTATTACATA
Found at i:35004073 original size:47 final size:47
Alignment explanation
Indices: 35004022--35004140 Score: 116
Period size: 50 Copynumber: 2.5 Consensus size: 47
35004012 TTTTATTTTA
* *
35004022 ATATTATTATGTATTTATTTTCAATATATA-TGTACATATTTATTAAT
1 ATATTATTATGTATTTATTTT-AATAGATATTGTACATATTCATTAAT
* * * *
35004069 ATATTTTTATGTTATTAATATTTATAATAGATATTGTATATGTTCATTTAT
1 ATATTATTATG-TATT--TATTT-TAATAGATATTGTACATATTCATTAAT
*
35004120 ATA-TATTATGTATATATTTTA
1 ATATTATTATGTATTTATTTTA
35004141 GTATTATTAT
Statistics
Matches: 59, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
46 2 0.03
47 15 0.25
48 4 0.07
49 3 0.05
50 18 0.31
51 17 0.29
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (47 bp):
ATATTATTATGTATTTATTTTAATAGATATTGTACATATTCATTAAT
Found at i:35004279 original size:14 final size:14
Alignment explanation
Indices: 35004262--35004306 Score: 72
Period size: 14 Copynumber: 3.2 Consensus size: 14
35004252 GGTAAAATAT
*
35004262 TTTCCGGAAAATGA
1 TTTCTGGAAAATGA
35004276 TTTCTGGAAAATGA
1 TTTCTGGAAAATGA
*
35004290 TTTCTGAAAAATGA
1 TTTCTGGAAAATGA
35004304 TTT
1 TTT
35004307 ACTTTTCTGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.38
Consensus pattern (14 bp):
TTTCTGGAAAATGA
Found at i:35006322 original size:18 final size:18
Alignment explanation
Indices: 35006296--35006359 Score: 78
Period size: 18 Copynumber: 3.6 Consensus size: 18
35006286 ATTGAAACTT
*
35006296 CAACTTATAAATGAACAA
1 CAACATATAAATGAACAA
35006314 CAACATATAAATGAACAA
1 CAACATATAAATGAACAA
*
35006332 CAAC-TCCCTAAA-GAACAA
1 CAACAT--ATAAATGAACAA
35006350 CAACATATAA
1 CAACATATAA
35006360 CTTATTTCAT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
17 4 0.10
18 31 0.77
19 5 0.12
ACGTcount: A:0.56, C:0.22, G:0.05, T:0.17
Consensus pattern (18 bp):
CAACATATAAATGAACAA
Found at i:35007107 original size:48 final size:48
Alignment explanation
Indices: 35007055--35007188 Score: 225
Period size: 48 Copynumber: 2.8 Consensus size: 48
35007045 GGAAAAGAAG
* * *
35007055 AAGAAGAAGAAGAAGAAAAAACCATACCCAAAAACCAATTTTAGGGAA
1 AAGAAGAAGAAGAAGAAAAAGCCGTACCCAAAAACCAATTTCAGGGAA
35007103 AAGAAGAAGAAGAAGAAAAAGCCGTACCCAAAAACCAATTTCAGGGAA
1 AAGAAGAAGAAGAAGAAAAAGCCGTACCCAAAAACCAATTTCAGGGAA
*
35007151 AAGAAGAAGAAGAAGAAAAAGCTGTACCC-AAAACCAAT
1 AAGAAGAAGAAGAAGAAAAAGCCGTACCCAAAAACCAAT
35007189 CTTACAGAAC
Statistics
Matches: 82, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
47 9 0.11
48 73 0.89
ACGTcount: A:0.57, C:0.16, G:0.19, T:0.09
Consensus pattern (48 bp):
AAGAAGAAGAAGAAGAAAAAGCCGTACCCAAAAACCAATTTCAGGGAA
Found at i:35010342 original size:19 final size:19
Alignment explanation
Indices: 35010282--35010343 Score: 51
Period size: 19 Copynumber: 3.3 Consensus size: 19
35010272 TACTAAAATA
*
35010282 AAATAA-AATAAAAATAAG-
1 AAATAATAAT-AAAAGAAGT
*
35010300 AAATAATAAGCTAAGAGAA-T
1 AAATAATAA--TAAAAGAAGT
35010320 -AATAATAATAAAAGAAGT
1 AAATAATAATAAAAGAAGT
35010338 AAATAA
1 AAATAA
35010344 AAGAAAATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 11
0.71 0.06 0.22
Matches are distributed among these distances:
17 7 0.20
18 7 0.20
19 15 0.43
20 5 0.14
21 1 0.03
ACGTcount: A:0.69, C:0.02, G:0.10, T:0.19
Consensus pattern (19 bp):
AAATAATAATAAAAGAAGT
Found at i:35010353 original size:32 final size:32
Alignment explanation
Indices: 35010312--35010387 Score: 82
Period size: 32 Copynumber: 2.4 Consensus size: 32
35010302 ATAATAAGCT
* *
35010312 AAGAGAATAATAAT-AATAAAAGAAGTAAATAA
1 AAGAAAATAAAAATAAAT-AAAGAAGTAAATAA
** *
35010344 AAGAAAATAAAAATAAATAATTAATTAAATAA
1 AAGAAAATAAAAATAAATAAAGAAGTAAATAA
*
35010376 AAGAAAAGAAAA
1 AAGAAAATAAAA
35010388 CCAAAGAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
32 34 0.92
33 3 0.08
ACGTcount: A:0.72, C:0.00, G:0.09, T:0.18
Consensus pattern (32 bp):
AAGAAAATAAAAATAAATAAAGAAGTAAATAA
Found at i:35017366 original size:21 final size:21
Alignment explanation
Indices: 35017308--35017370 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
35017298 AGTGCCCAGT
35017308 CCATGTG--GGGGTCTACACGC
1 CCATGTGAAGGGGTC-ACACGC
***
35017328 CCATGTGAAGGCCACACACGC
1 CCATGTGAAGGGGTCACACGC
* *
35017349 CCGTGTGGAGGGGTCACACGC
1 CCATGTGAAGGGGTCACACGC
35017370 C
1 C
35017371 GCTTGTGCAG
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
20 7 0.21
21 23 0.70
22 3 0.09
ACGTcount: A:0.19, C:0.33, G:0.33, T:0.14
Consensus pattern (21 bp):
CCATGTGAAGGGGTCACACGC
Found at i:35019422 original size:46 final size:46
Alignment explanation
Indices: 35019372--35019547 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
35019362 TGGTTGAGCA
35019372 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
35019418 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
35019463 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
35019511 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
35019548 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:35019528 original size:93 final size:93
Alignment explanation
Indices: 35019369--35019539 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
35019359 GGATGGTTGA
* *
35019369 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
35019434 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
35019462 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
35019527 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
35019540 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:35026599 original size:34 final size:37
Alignment explanation
Indices: 35026533--35026613 Score: 98
Period size: 34 Copynumber: 2.2 Consensus size: 37
35026523 ATATATTTTT
35026533 AATAATTTTTTATAGTTTTTAAATATGTTTATTTTAAAA
1 AATAATTTTTTATAGTTTTT--ATATGTTTATTTTAAAA
35026572 GAATAATTTTTTATAG-TTTT-T-T-TTTATTTTAAAA
1 -AATAATTTTTTATAGTTTTTATATGTTTATTTTAAAA
35026606 AATTAATT
1 AA-TAATT
35026614 AATTGTTGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
33 2 0.05
34 17 0.43
35 1 0.03
36 1 0.03
39 4 0.10
40 15 0.38
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (37 bp):
AATAATTTTTTATAGTTTTTATATGTTTATTTTAAAA
Found at i:35032147 original size:29 final size:28
Alignment explanation
Indices: 35032095--35032151 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 28
35032085 AGGTTCTAAT
35032095 ACCTTTGATACAGCTGAACCAGAAAAGA
1 ACCTTTGATACAGCTGAACCAGAAAAGA
*
35032123 ACCTTTGATACGGCCTGAACCAGAAAAGA
1 ACCTTTGATACAG-CTGAACCAGAAAAGA
35032152 TTAGAAAGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 12 0.44
29 15 0.56
ACGTcount: A:0.40, C:0.23, G:0.19, T:0.18
Consensus pattern (28 bp):
ACCTTTGATACAGCTGAACCAGAAAAGA
Found at i:35032315 original size:92 final size:92
Alignment explanation
Indices: 35032158--35032339 Score: 294
Period size: 92 Copynumber: 2.0 Consensus size: 92
35032148 AAGATTAGAA
* * * *
35032158 AGCAAAGAGAAAAGATAGAGGGAATTGAGAATAAGAGAGAATAAAGAAGGAAGTTGTATTAACCA
1 AGCAAAGAGAAAAGATAAAAGGAATTGAGAAGAAGAGAGAATAAAGAAGGAAATTGTATTAACCA
35032223 AAATTGATAATT-TTTTCCCCTCTCAGC
66 AAATTGATAATTGTTTT-CCCTCTCAGC
* *
35032250 AGCAAAGAGAAAAGATAAAAGGAATTGAGAAGAGGAGAGAATAATGAAGGAAATTGTATTAACCA
1 AGCAAAGAGAAAAGATAAAAGGAATTGAGAAGAAGAGAGAATAAAGAAGGAAATTGTATTAACCA
35032315 AAATTGATAATTGTTTTCCCTCTCA
66 AAATTGATAATTGTTTTCCCTCTCA
35032340 ACAGTAGGTT
Statistics
Matches: 83, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
92 79 0.95
93 4 0.05
ACGTcount: A:0.46, C:0.10, G:0.21, T:0.23
Consensus pattern (92 bp):
AGCAAAGAGAAAAGATAAAAGGAATTGAGAAGAAGAGAGAATAAAGAAGGAAATTGTATTAACCA
AAATTGATAATTGTTTTCCCTCTCAGC
Found at i:35032794 original size:22 final size:22
Alignment explanation
Indices: 35032764--35032842 Score: 89
Period size: 22 Copynumber: 3.8 Consensus size: 22
35032754 ACAGGTACGA
35032764 GGAGAAGGGACGATGGTGGAGAG
1 GGAG-AGGGACGATGGTGGAGAG
35032787 GGAGAGGGACGATGGT---G-G
1 GGAGAGGGACGATGGTGGAGAG
* *
35032805 GGA-AGAG-TGATGGTGGAGAG
1 GGAGAGGGACGATGGTGGAGAG
35032825 GGAGAGGGACGATGGTGG
1 GGAGAGGGACGATGGTGG
35032843 GGAAGAGTGA
Statistics
Matches: 46, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
16 6 0.13
17 3 0.07
18 4 0.09
19 2 0.04
20 4 0.09
21 3 0.07
22 20 0.43
23 4 0.09
ACGTcount: A:0.27, C:0.04, G:0.58, T:0.11
Consensus pattern (22 bp):
GGAGAGGGACGATGGTGGAGAG
Found at i:35032818 original size:16 final size:16
Alignment explanation
Indices: 35032797--35032858 Score: 52
Period size: 16 Copynumber: 3.5 Consensus size: 16
35032787 GGAGAGGGAC
35032797 GATGGTGGGGAAGAGT
1 GATGGTGGGGAAGAGT
* *
35032813 GATGGTGGAGAGGGAGAGGGAC
1 GATGGT---G-GGGA-AGAG-T
35032835 GATGGTGGGGAAGAGT
1 GATGGTGGGGAAGAGT
35032851 GATGGTGG
1 GATGGTGG
35032859 AGAGACAAGG
Statistics
Matches: 36, Mismatches: 4, Indels: 12
0.69 0.08 0.23
Matches are distributed among these distances:
16 14 0.39
17 3 0.08
18 4 0.11
19 2 0.06
20 4 0.11
21 3 0.08
22 6 0.17
ACGTcount: A:0.24, C:0.02, G:0.58, T:0.16
Consensus pattern (16 bp):
GATGGTGGGGAAGAGT
Found at i:35032826 original size:38 final size:38
Alignment explanation
Indices: 35032775--35032862 Score: 176
Period size: 38 Copynumber: 2.3 Consensus size: 38
35032765 GAGAAGGGAC
35032775 GATGGTGGAGAGGGAGAGGGACGATGGTGGGGAAGAGT
1 GATGGTGGAGAGGGAGAGGGACGATGGTGGGGAAGAGT
35032813 GATGGTGGAGAGGGAGAGGGACGATGGTGGGGAAGAGT
1 GATGGTGGAGAGGGAGAGGGACGATGGTGGGGAAGAGT
35032851 GATGGTGGAGAG
1 GATGGTGGAGAG
35032863 ACAAGGGTGA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 50 1.00
ACGTcount: A:0.26, C:0.02, G:0.58, T:0.14
Consensus pattern (38 bp):
GATGGTGGAGAGGGAGAGGGACGATGGTGGGGAAGAGT
Found at i:35032830 original size:19 final size:20
Alignment explanation
Indices: 35032775--35032862 Score: 76
Period size: 19 Copynumber: 4.6 Consensus size: 20
35032765 GAGAAGGGAC
35032775 GATGGTGGAGAGGG-AGAGG
1 GATGGTGGAGAGGGAAGAGG
* * * *
35032794 GACGATGGTG-GGGAAGAGT
1 GATGGTGGAGAGGGAAGAGG
35032813 GATGGTGGAGAGGG-AGAGG
1 GATGGTGGAGAGGGAAGAGG
* * * *
35032832 GACGATGGTG-GGGAAGAGT
1 GATGGTGGAGAGGGAAGAGG
35032851 GATGGTGGAGAG
1 GATGGTGGAGAG
35032863 ACAAGGGTGA
Statistics
Matches: 50, Mismatches: 15, Indels: 7
0.69 0.21 0.10
Matches are distributed among these distances:
18 6 0.12
19 40 0.80
20 4 0.08
ACGTcount: A:0.26, C:0.02, G:0.58, T:0.14
Consensus pattern (20 bp):
GATGGTGGAGAGGGAAGAGG
Found at i:35033316 original size:66 final size:66
Alignment explanation
Indices: 35033210--35033344 Score: 270
Period size: 66 Copynumber: 2.0 Consensus size: 66
35033200 ATATTTTATG
35033210 AAGTTTACACACATGTTGCTAGGCTGAAATTGGGTTTCGTGTTGGGGATGTTGTCACATCAGAAT
1 AAGTTTACACACATGTTGCTAGGCTGAAATTGGGTTTCGTGTTGGGGATGTTGTCACATCAGAAT
35033275 T
66 T
35033276 AAGTTTACACACATGTTGCTAGGCTGAAATTGGGTTTCGTGTTGGGGATGTTGTCACATCAGAAT
1 AAGTTTACACACATGTTGCTAGGCTGAAATTGGGTTTCGTGTTGGGGATGTTGTCACATCAGAAT
35033341 T
66 T
35033342 AAG
1 AAG
35033345 CTGGCTCTGA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 69 1.00
ACGTcount: A:0.25, C:0.13, G:0.27, T:0.34
Consensus pattern (66 bp):
AAGTTTACACACATGTTGCTAGGCTGAAATTGGGTTTCGTGTTGGGGATGTTGTCACATCAGAAT
T
Found at i:35035380 original size:20 final size:20
Alignment explanation
Indices: 35035312--35035402 Score: 101
Period size: 20 Copynumber: 4.2 Consensus size: 20
35035302 TTTATTATTG
* *
35035312 TTTTATAAAATTTGAAATGTA
1 TTTT-TAAAATTTTAAATATA
*
35035333 TATTTTAAATTTTTTATAATATTA
1 T-TTTTAAA-ATTTTA-AATA-TA
35035357 TTTTTAAAATTTTAAATATA
1 TTTTTAAAATTTTAAATATA
35035377 TTTTTAAAATTTTAAATATAA
1 TTTTTAAAATTTTAAATAT-A
35035398 TTTTT
1 TTTTT
35035403 TTAATATTAT
Statistics
Matches: 61, Mismatches: 4, Indels: 10
0.81 0.05 0.13
Matches are distributed among these distances:
20 21 0.34
21 15 0.25
22 12 0.20
23 10 0.16
24 3 0.05
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (20 bp):
TTTTTAAAATTTTAAATATA
Found at i:35035574 original size:32 final size:32
Alignment explanation
Indices: 35035534--35035594 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
35035524 AAGTTATTAA
* *
35035534 TTTTTTAAATT-TTTTTAAAGATATTAAAACGT
1 TTTTTTAAATTATATTTAAAAAT-TTAAAACGT
35035566 TTTTTTAAATTATATTTAAAAATTTAAAA
1 TTTTTTAAATTATATTTAAAAATTTAAAA
35035595 TTTAATATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
32 17 0.65
33 9 0.35
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (32 bp):
TTTTTTAAATTATATTTAAAAATTTAAAACGT
Found at i:35035580 original size:23 final size:23
Alignment explanation
Indices: 35035543--35035586 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
35035533 ATTTTTTAAA
35035543 TTTTTTTAAAGATA-TTAAAACG
1 TTTTTTTAAAGATATTTAAAACG
*
35035565 TTTTTTTAAATTATATTTAAAA
1 TTTTTTTAAA-GATATTTAAAA
35035587 ATTTAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 3 0.16
24 6 0.32
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (23 bp):
TTTTTTTAAAGATATTTAAAACG
Found at i:35036958 original size:29 final size:28
Alignment explanation
Indices: 35036924--35037004 Score: 85
Period size: 29 Copynumber: 2.8 Consensus size: 28
35036914 TGATTCATCC
35036924 ATGGAAAATAAAATAA-AAAAATGATGAA
1 ATGGAAAATAAAATAATAAAAATGAT-AA
* *
35036952 ATTGGAAAGTGAAATAATAAAAGATGATAA
1 A-TGGAAAATAAAATAATAAAA-ATGATAA
*
35036982 ATGATAAAATAAAA-AATAAAAAT
1 ATG-GAAAATAAAATAATAAAAAT
35037005 ATCATCATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
28 3 0.07
29 22 0.50
30 14 0.32
31 5 0.11
ACGTcount: A:0.65, C:0.00, G:0.14, T:0.21
Consensus pattern (28 bp):
ATGGAAAATAAAATAATAAAAATGATAA
Done.