Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009175.1 Hibiscus syriacus cultivar Beakdansim tig00112738_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: 10629029
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 44 of 51
Found at i:9083512 original size:90 final size:92
Alignment explanation
Indices: 9083306--9083680 Score: 348
Period size: 102 Copynumber: 3.9 Consensus size: 92
9083296 ACCTATTATA
** * * * *
9083306 TTATCATGAAAAACCTGTTTTGTCTTACTTTTACAAAATATAAATGGTTTCATT-CTTATAACTT
1 TTATCATGAGCAACATGTTTTGTCTTACTTTTGCATAATATAAACGGTTTC-TTACTTATAACTT
*
9083370 AAACGATTCACATTTAAAAAACGGTGCTACCCAGTGTG
65 AAACGATTGACA-TTAAAAAA----GCTA-CC----TG
* *
9083408 TTATCATGAACAACATGTTTTGTCTTACTTTTGCATAATATAAACGGTTTCTTACTTATAATTTA
1 TTATCATGAGCAACATGTTTTGTCTTACTTTTGCATAATATAAACGGTTTCTTACTTATAACTTA
*
9083473 AACGGTTGACATTGAAAAAAG-TA-C-G
66 AACGATTGACATT-AAAAAAGCTACCTG
* * *
9083498 TTATCATGAGCAACATGATTTGTCTTACTTTTGCATAATATAAACAGTTTCATT-CTAATAACTT
1 TTATCATGAGCAACATGTTTTGTCTTACTTTTGCATAATATAAACGGTTTC-TTACTTATAACTT
9083562 AAACGATTGACA-TAAAGAAAGCGCTACCTATTATG
65 AAACGATTGACATTAAA-AAA--GCTACC-----TG
* * * * **
9083597 TTATCATGAGAAACATGTTTTGCCTTTCTTTTGCATCATATAAACGGTTTCAAACTTATAACTTA
1 TTATCATGAGCAACATGTTTTGTCTTACTTTTGCATAATATAAACGGTTTCTTACTTATAACTTA
9083662 AACGATTGACATTAAAAAA
66 AACGATTGACATTAAAAAA
9083681 AGGTGTTACC
Statistics
Matches: 234, Mismatches: 23, Indels: 35
0.80 0.08 0.12
Matches are distributed among these distances:
88 3 0.01
89 4 0.02
90 68 0.29
91 3 0.01
92 2 0.01
93 1 0.00
95 1 0.00
97 2 0.01
98 1 0.00
99 70 0.30
100 4 0.02
101 4 0.02
102 71 0.30
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.37
Consensus pattern (92 bp):
TTATCATGAGCAACATGTTTTGTCTTACTTTTGCATAATATAAACGGTTTCTTACTTATAACTTA
AACGATTGACATTAAAAAAGCTACCTG
Found at i:9083665 original size:189 final size:190
Alignment explanation
Indices: 9083306--9083682 Score: 499
Period size: 189 Copynumber: 2.0 Consensus size: 190
9083296 ACCTATTATA
* * ** *
9083306 TTATCATGAAAAACCTGTTTTGTCTTACTTTTACAAAATATAAATGGTTTCATTCTTATAACTTA
1 TTATCATGAAAAACATGATTTGTCTTACTTTTACAAAATATAAACAGTTTCATTCTAATAACTTA
* * *
9083371 AACGATTCACATTTAAAAAACGGTGCTACCCAGTGTGTTATCATGAACAACATGTTTTGTCTTAC
66 AACGATTCACA-TTAAAAAAC-GCGCTACCCAGTATGTTATCATGAACAACATGTTTTGCCTTAC
** * * *
9083436 TTTTGCATAATATAAACGGTTTCTTACTTATAATTTAAACGGTTGACATTGAAAAAAGTACG
129 TTTTGCATAATATAAACGGTTTCAAACTTATAACTTAAACGATTGACATTAAAAAAAGTACG
** * *
9083498 TTATCATGAGCAACATGATTTGTCTTACTTTTGCATAATATAAACAGTTTCATTCTAATAACTTA
1 TTATCATGAAAAACATGATTTGTCTTACTTTTACAAAATATAAACAGTTTCATTCTAATAACTTA
* * * *
9083563 AACGATTGACA-TAAAGAAA-GCGCTACCTATTATGTTATCATGAGA-AACATGTTTTGCCTTTC
66 AACGATTCACATTAAA-AAACGCGCTACCCAGTATGTTATCATGA-ACAACATGTTTTGCCTTAC
*
9083625 TTTTGCATCATATAAACGGTTTCAAACTTATAACTTAAACGATTGACATTAAAAAAAG
129 TTTTGCATAATATAAACGGTTTCAAACTTATAACTTAAACGATTGACATTAAAAAAAG
9083683 GTGTTACCTA
Statistics
Matches: 161, Mismatches: 22, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
189 87 0.54
190 5 0.03
191 3 0.02
192 66 0.41
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (190 bp):
TTATCATGAAAAACATGATTTGTCTTACTTTTACAAAATATAAACAGTTTCATTCTAATAACTTA
AACGATTCACATTAAAAAACGCGCTACCCAGTATGTTATCATGAACAACATGTTTTGCCTTACTT
TTGCATAATATAAACGGTTTCAAACTTATAACTTAAACGATTGACATTAAAAAAAGTACG
Found at i:9091467 original size:32 final size:32
Alignment explanation
Indices: 9091431--9091555 Score: 214
Period size: 32 Copynumber: 3.9 Consensus size: 32
9091421 GTTTTTGGTT
*
9091431 AGATGAAAGGAGTTTGTTGTATAAGAGATTGA
1 AGATGAAAGGAGTGTGTTGTATAAGAGATTGA
*
9091463 AGATGAAAGGAGTTTGTTGTATAAGAGATTGA
1 AGATGAAAGGAGTGTGTTGTATAAGAGATTGA
9091495 AGATGAAAGGAGTGTGTTGTATAAGAGATTGA
1 AGATGAAAGGAGTGTGTTGTATAAGAGATTGA
* *
9091527 ATATGAAAGGAGTGTGTTGTGTAAGAGAT
1 AGATGAAAGGAGTGTGTTGTATAAGAGAT
9091556 GAAAGTTGTC
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 90 1.00
ACGTcount: A:0.37, C:0.00, G:0.33, T:0.30
Consensus pattern (32 bp):
AGATGAAAGGAGTGTGTTGTATAAGAGATTGA
Found at i:9092129 original size:7 final size:7
Alignment explanation
Indices: 9092119--9092143 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
9092109 CTTTCTAGGA
9092119 CAAATAC
1 CAAATAC
9092126 CAAATAC
1 CAAATAC
9092133 CAAATAC
1 CAAATAC
9092140 CAAA
1 CAAA
9092144 CAGTTCCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.28, G:0.00, T:0.12
Consensus pattern (7 bp):
CAAATAC
Found at i:9099798 original size:44 final size:44
Alignment explanation
Indices: 9099723--9100046 Score: 186
Period size: 44 Copynumber: 7.7 Consensus size: 44
9099713 CTGGATAAGT
* * *
9099723 AAGATTCATCATAGTATGAGCAATATTATCACCCTTAGATGGCC
1 AAGATTCATCATAGTATGAGCAGTGTCATCACCCTTAGATGGCC
9099767 AAGATTCATCATAGTATGAGCAGTGTCATCACCC---GA---CC
1 AAGATTCATCATAGTATGAGCAGTGTCATCACCCTTAGATGGCC
* * * * * **
9099805 -TGATCTCCTCATCACGTAGGAGTC-GTGTCA--A-CTTTGGATAACC
1 AAGAT-TCATCAT-A-GTATGAG-CAGTGTCATCACCCTTAGATGGCC
* * *
9099848 GAGACTCATCATAGTATGAGCAGTGTTATCACCCTTAGATGGCC
1 AAGATTCATCATAGTATGAGCAGTGTCATCACCCTTAGATGGCC
*
9099892 AAGATTCATCATAGTATGTGCAGTGTCATC-CCC-T-GA----C
1 AAGATTCATCATAGTATGAGCAGTGTCATCACCCTTAGATGGCC
* * * * * * **
9099929 TAGATCTCCTCATTACGTAGGAGCCGTGTGA--ACCC-TGGATAACC
1 AAGAT-TCATCA-TA-GTATGAGCAGTGTCATCACCCTTAGATGGCC
* * * *
9099973 AAGATTCATCATAGTTTGAGCAGTGTTATCACCCTTAGACGGTC
1 AAGATTCATCATAGTATGAGCAGTGTCATCACCCTTAGATGGCC
* *
9100017 AAGATTCATCATAGTATTAGTAGTGTCATC
1 AAGATTCATCATAGTATGAGCAGTGTCATC
9100047 CCTGACCTGA
Statistics
Matches: 212, Mismatches: 41, Indels: 54
0.69 0.13 0.18
Matches are distributed among these distances:
37 9 0.04
38 14 0.07
39 7 0.03
40 28 0.13
41 27 0.13
42 4 0.02
43 21 0.10
44 102 0.48
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (44 bp):
AAGATTCATCATAGTATGAGCAGTGTCATCACCCTTAGATGGCC
Found at i:9099858 original size:125 final size:123
Alignment explanation
Indices: 9099633--9100216 Score: 717
Period size: 125 Copynumber: 4.7 Consensus size: 123
9099623 ATCAAAATCT
9099633 TTAGATGGCCAAGATTCATCATAGTATGAGCAGTGTCATCCCTGACCAT-ATCTCCTCATCACGT
1 TTAGATGGCCAAGATTCATCATAGTATGAGCAGTGTCATCCCTGACC-TGATCTCCTCATCACGT
* ** * *
9099697 AGGAGCTATGTCAACCCTGGATAAGTAAGATTCATCATAGTATGAGCAATATTATCACCC
65 AGGAGC-GTGTCAACCCTGGATAACCAAGATTCATCATAGTATGAGCAGTGTTATCACCC
*
9099757 TTAGATGGCCAAGATTCATCATAGTATGAGCAGTGTCATCACCCGACCTGATCTCCTCATCACGT
1 TTAGATGGCCAAGATTCATCATAGTATGAGCAGTGTCATC-CCTGACCTGATCTCCTCATCACGT
** * *
9099822 AGGAGTCGTGTCAACTTTGGATAACCGAGACTCATCATAGTATGAGCAGTGTTATCACCC
65 AGGAG-CGTGTCAACCCTGGATAACCAAGATTCATCATAGTATGAGCAGTGTTATCACCC
* *
9099882 TTAGATGGCCAAGATTCATCATAGTATGTGCAGTGTCATCCCCTGA-CTAGATCTCCTCATTACG
1 TTAGATGGCCAAGATTCATCATAGTATGAGCAGTGTCAT-CCCTGACCT-GATCTCCTCATCACG
* *
9099946 TAGGAGCCGTGTGAACCCTGGATAACCAAGATTCATCATAGTTTGAGCAGTGTTATCACCC
64 TAGGAG-CGTGTCAACCCTGGATAACCAAGATTCATCATAGTATGAGCAGTGTTATCACCC
* * * * * * *
9100007 TTAGACGGTCAAGATTCATCATAGTATTAGTAGTGTCATCCCTGACCTGATTTTCTCATCACGGA
1 TTAGATGGCCAAGATTCATCATAGTATGAGCAGTGTCATCCCTGACCTGATCTCCTCATCACGTA
* * * *
9100072 GGAACCGTGTCAACCTTGGATAACCAGGATTCATCATAGTATGAGCAGTTTTATCACCC
66 GG-AGCGTGTCAACCCTGGATAACCAAGATTCATCATAGTATGAGCAGTGTTATCACCC
* ** * * * *
9100131 TTCCTAAAGATGGCCAAGACTCATCGCA-TATGAGCAATGTCATCCCATAACCAGATCTCCTCGT
1 -T--T--AGATGGCCAAGATTCATCATAGTATGAGCAGTGTCATCCC-TGACCTGATCTCCTCAT
9100195 CACGTAGGAGCTGTGTC-ACCCT
60 CACGTAGGAGC-GTGTCAACCCT
9100217 TAGACAACCC
Statistics
Matches: 395, Mismatches: 51, Indels: 24
0.84 0.11 0.05
Matches are distributed among these distances:
124 113 0.29
125 218 0.55
126 2 0.01
127 1 0.00
128 21 0.05
129 40 0.10
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.28
Consensus pattern (123 bp):
TTAGATGGCCAAGATTCATCATAGTATGAGCAGTGTCATCCCTGACCTGATCTCCTCATCACGTA
GGAGCGTGTCAACCCTGGATAACCAAGATTCATCATAGTATGAGCAGTGTTATCACCC
Found at i:9100095 original size:249 final size:251
Alignment explanation
Indices: 9099631--9100216 Score: 797
Period size: 250 Copynumber: 2.3 Consensus size: 251
9099621 AAATCAAAAT
*
9099631 CTTTAGATGGCCAAGATTCATCATAGTATGAGCAGTGTCAT-CCCTGACCATATCTCCTCATCAC
1 CTTTAGATGGCCAAGATTCATCATAGTATGAGCAGTGTCATCCCCTGACCAGATCTCCTCATCAC
* **
9099695 GTAGGAGCTATGTCAACCCTGGATAAGTAAGATTCATCATAGTATGAGCAATATTATCACCCTTA
66 GTAGGAGCTGTGTCAACCCTGGATAACCAAGATTCATCATAGTATGAGCAATATTATCACCCTTA
* *
9099760 GATGGCCAAGATTCATCATAGTATGAGCAGTGTCATCACCCGACCTGATCTCCTCATCACGTAGG
131 GACGGCCAAGATTCATCATAGTATGAGCAGTGTCATCACCCGACCTGATCTCCTCATCACGGAGG
** *
9099825 AGTCGTGTCAACTTTGGATAACC-GAGACTCATCATAGTATGAGCAGTGTTATCACC
196 AACCGTGTCAACCTTGGATAACCAG-GACTCATCATAGTATGAGCAGTGTTATCACC
* * *
9099881 C-TTAGATGGCCAAGATTCATCATAGTATGTGCAGTGTCATCCCCTGACTAGATCTCCTCATTAC
1 CTTTAGATGGCCAAGATTCATCATAGTATGAGCAGTGTCATCCCCTGACCAGATCTCCTCATCAC
* * * * *
9099945 GTAGGAGCCGTGTGAACCCTGGATAACCAAGATTCATCATAGTTTGAGCAGTGTTATCACCCTTA
66 GTAGGAGCTGTGTCAACCCTGGATAACCAAGATTCATCATAGTATGAGCAATATTATCACCCTTA
* * * * * *
9100010 GACGGTCAAGATTCATCATAGTATTAGTAGTGTCATC-CCTGACCTGATTTTCTCATCACGGAGG
131 GACGGCCAAGATTCATCATAGTATGAGCAGTGTCATCACCCGACCTGATCTCCTCATCACGGAGG
* *
9100074 AACCGTGTCAACCTTGGATAACCAGGATTCATCATAGTATGAGCAGTTTTATCACC
196 AACCGTGTCAACCTTGGATAACCAGGACTCATCATAGTATGAGCAGTGTTATCACC
* ** * * * *
9100130 CTTCCTAAAGATGGCCAAGACTCATCGCA-TATGAGCAATGTCATCCCATAACCAGATCTCCTCG
1 CTT--T--AGATGGCCAAGATTCATCATAGTATGAGCAGTGTCATCCCCTGACCAGATCTCCTCA
9100194 TCACGTAGGAGCTGTGTC-ACCCT
62 TCACGTAGGAGCTGTGTCAACCCT
9100217 TAGACAACCC
Statistics
Matches: 292, Mismatches: 37, Indels: 12
0.86 0.11 0.04
Matches are distributed among these distances:
249 111 0.38
250 113 0.39
252 6 0.02
253 44 0.15
254 18 0.06
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (251 bp):
CTTTAGATGGCCAAGATTCATCATAGTATGAGCAGTGTCATCCCCTGACCAGATCTCCTCATCAC
GTAGGAGCTGTGTCAACCCTGGATAACCAAGATTCATCATAGTATGAGCAATATTATCACCCTTA
GACGGCCAAGATTCATCATAGTATGAGCAGTGTCATCACCCGACCTGATCTCCTCATCACGGAGG
AACCGTGTCAACCTTGGATAACCAGGACTCATCATAGTATGAGCAGTGTTATCACC
Found at i:9100414 original size:3 final size:3
Alignment explanation
Indices: 9100393--9100443 Score: 68
Period size: 3 Copynumber: 16.3 Consensus size: 3
9100383 GTCGAAAAAA
9100393 TAT TAT TAAT TA- TATT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAAT
1 TAT TAT T-AT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT
9100440 TAT T
1 TAT T
9100444 GTGTTTTACA
Statistics
Matches: 44, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
2 2 0.05
3 34 0.77
4 8 0.18
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:9101404 original size:2 final size:2
Alignment explanation
Indices: 9101397--9101422 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9101387 TTAGTCTTAA
9101397 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
9101423 GTATTTATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9101703 original size:2 final size:2
Alignment explanation
Indices: 9101696--9101721 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9101686 TTATTCATTA
9101696 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
9101722 TATTCGAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9104968 original size:8 final size:8
Alignment explanation
Indices: 9104955--9105194 Score: 363
Period size: 8 Copynumber: 30.0 Consensus size: 8
9104945 ATGGTTGATC
9104955 ATATATAT
1 ATATATAT
9104963 ATATATAT
1 ATATATAT
9104971 ATATATAT
1 ATATATAT
*
9104979 ATATGTAT
1 ATATATAT
9104987 ATATATAT
1 ATATATAT
9104995 ATATATAT
1 ATATATAT
*
9105003 GTATATAT
1 ATATATAT
*
9105011 ATATATGT
1 ATATATAT
9105019 ATATATAT
1 ATATATAT
*
9105027 ATGTATAT
1 ATATATAT
*
9105035 ATGTATAT
1 ATATATAT
*
9105043 ATATATGT
1 ATATATAT
9105051 ATATATAT
1 ATATATAT
*
9105059 GTATATAT
1 ATATATAT
*
9105067 ATATATGT
1 ATATATAT
9105075 ATATATAT
1 ATATATAT
9105083 ATATATAT
1 ATATATAT
9105091 ATATATAT
1 ATATATAT
*
9105099 ATGTATAT
1 ATATATAT
9105107 ATATATAT
1 ATATATAT
*
9105115 ATATATGT
1 ATATATAT
*
9105123 ATATATAC
1 ATATATAT
9105131 ATATATAT
1 ATATATAT
9105139 ATATATAT
1 ATATATAT
9105147 ATATATAT
1 ATATATAT
9105155 ATATATAT
1 ATATATAT
*
9105163 ATGTATAT
1 ATATATAT
*
9105171 ACATATAT
1 ATATATAT
9105179 ATATATAT
1 ATATATAT
9105187 ATATATAT
1 ATATATAT
9105195 GTTAGAGTAT
Statistics
Matches: 208, Mismatches: 24, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 208 1.00
ACGTcount: A:0.45, C:0.01, G:0.05, T:0.49
Consensus pattern (8 bp):
ATATATAT
Found at i:9104972 original size:12 final size:12
Alignment explanation
Indices: 9104955--9105194 Score: 363
Period size: 12 Copynumber: 20.0 Consensus size: 12
9104945 ATGGTTGATC
9104955 ATATATATATAT
1 ATATATATATAT
9104967 ATATATATATAT
1 ATATATATATAT
*
9104979 ATATGTATATAT
1 ATATATATATAT
9104991 ATATATATATAT
1 ATATATATATAT
*
9105003 GTATATATATAT
1 ATATATATATAT
*
9105015 ATGTATATATAT
1 ATATATATATAT
* *
9105027 ATGTATATATGT
1 ATATATATATAT
*
9105039 ATATATATATGT
1 ATATATATATAT
*
9105051 ATATATATGTAT
1 ATATATATATAT
*
9105063 ATATATATATGT
1 ATATATATATAT
9105075 ATATATATATAT
1 ATATATATATAT
9105087 ATATATATATAT
1 ATATATATATAT
*
9105099 ATGTATATATAT
1 ATATATATATAT
*
9105111 ATATATATATGT
1 ATATATATATAT
*
9105123 ATATATACATAT
1 ATATATATATAT
9105135 ATATATATATAT
1 ATATATATATAT
9105147 ATATATATATAT
1 ATATATATATAT
*
9105159 ATATATGTATAT
1 ATATATATATAT
*
9105171 ACATATATATAT
1 ATATATATATAT
9105183 ATATATATATAT
1 ATATATATATAT
9105195 GTTAGAGTAT
Statistics
Matches: 206, Mismatches: 22, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 206 1.00
ACGTcount: A:0.45, C:0.01, G:0.05, T:0.49
Consensus pattern (12 bp):
ATATATATATAT
Found at i:9104980 original size:20 final size:20
Alignment explanation
Indices: 9104955--9105194 Score: 363
Period size: 20 Copynumber: 12.0 Consensus size: 20
9104945 ATGGTTGATC
9104955 ATATATATATATATATATAT
1 ATATATATATATATATATAT
*
9104975 ATATATATGTATATATATAT
1 ATATATATATATATATATAT
*
9104995 ATATATATGTATATATATAT
1 ATATATATATATATATATAT
* *
9105015 ATGTATATATATATGTATAT
1 ATATATATATATATATATAT
* *
9105035 ATGTATATATATATGTATAT
1 ATATATATATATATATATAT
* *
9105055 ATATGTATATATATATATGT
1 ATATATATATATATATATAT
9105075 ATATATATATATATATATAT
1 ATATATATATATATATATAT
*
9105095 ATATATGTATATATATATAT
1 ATATATATATATATATATAT
* *
9105115 ATATATGTATATATACATAT
1 ATATATATATATATATATAT
9105135 ATATATATATATATATATAT
1 ATATATATATATATATATAT
* *
9105155 ATATATATATGTATATACAT
1 ATATATATATATATATATAT
9105175 ATATATATATATATATATAT
1 ATATATATATATATATATAT
9105195 GTTAGAGTAT
Statistics
Matches: 202, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 202 1.00
ACGTcount: A:0.45, C:0.01, G:0.05, T:0.49
Consensus pattern (20 bp):
ATATATATATATATATATAT
Found at i:9106286 original size:90 final size:89
Alignment explanation
Indices: 9106171--9106343 Score: 285
Period size: 90 Copynumber: 1.9 Consensus size: 89
9106161 TAATACAGAA
* *
9106171 TATTTAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCTCC-AATATGA
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAA-C-CCTAATATGA
9106235 TTAGGGTAACTTGGATATAAGAGGAT
64 TTAGGGTAACTTGGATATAAGAGGAT
*
9106261 TATTAAATTCCAATTAATTAAATATAGATTTAATTACTTTGAAATAATAAAACCCTAATATGATT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATT
*
9106326 AGGGTAACTTGGCTATAA
66 AGGGTAACTTGGATATAA
9106344 AAGGGTGTGT
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
88 2 0.03
89 27 0.35
90 49 0.63
ACGTcount: A:0.43, C:0.08, G:0.11, T:0.38
Consensus pattern (89 bp):
TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATT
AGGGTAACTTGGATATAAGAGGAT
Found at i:9113048 original size:90 final size:89
Alignment explanation
Indices: 9112932--9113104 Score: 276
Period size: 90 Copynumber: 1.9 Consensus size: 89
9112922 TAATCACGAA
* *
9112932 TATTTAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCCAATAAT-A
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAA-CCCCAAT-ATGA
9112996 TTAGGGTAACTTGGATATAAGAGGAT
64 TTAGGGTAACTTGGATATAAGAGGAT
*
9113022 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCCAATATGATT
* *
9113087 AGTGTAACTTGGCTATAA
66 AGGGTAACTTGGATATAA
9113105 AAGGGTGTGT
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
88 2 0.03
89 25 0.32
90 50 0.65
ACGTcount: A:0.45, C:0.08, G:0.10, T:0.38
Consensus pattern (89 bp):
TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCCAATATGATT
AGGGTAACTTGGATATAAGAGGAT
Found at i:9117530 original size:21 final size:21
Alignment explanation
Indices: 9117492--9117535 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
9117482 AAATAAATAA
*
9117492 ATAATAAATAATATAAACAAT
1 ATAATAAATAATAAAAACAAT
*
9117513 ATAAT-AATAATGAAAAACTAT
1 ATAATAAATAAT-AAAAACAAT
9117534 AT
1 AT
9117536 TATATATGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.30
Consensus pattern (21 bp):
ATAATAAATAATAAAAACAAT
Found at i:9117662 original size:38 final size:38
Alignment explanation
Indices: 9117531--9118063 Score: 530
Period size: 38 Copynumber: 14.4 Consensus size: 38
9117521 AATGAAAAAC
*
9117531 TATATTATATATGTTTT---TAAATGTTTTCAAAA-TCA
1 TATATTATATATGTTTTCAAAAAATGTTTTCAAAACT-A
* * * * *
9117566 TTATATTTTATATG-TTTC-CAAATTCATTTTAAAAACTA
1 -TATATTATATATGTTTTCAAAAAAT-GTTTTCAAAACTA
*
9117604 TATATTATA-A-GTTTTCAAAAATAT-TTTTTAAAACTA
1 TATATTATATATGTTTTCAAAAA-ATGTTTTCAAAACTA
***
9117640 TATATTAT-T-TGTTTTCAAAAAA-AAATTCAAAA-TCA
1 TATATTATATATGTTTTCAAAAAATGTTTTCAAAACT-A
*
9117675 TATA-T-TATATGTTTTCAAAAGTAT-TTTT-AGAAACTA
1 TATATTATATATGTTTTCAAAA-AATGTTTTCA-AAACTA
* *
9117711 TATATTATA-CT-TTTTCAAAAGTAT-TTTTCAAAACTA
1 TATATTATATATGTTTTCAAAA-AATGTTTTCAAAACTA
9117747 TATATTATATATG-TTT-AAAACAATGTTTTCAAAACTA
1 TATATTATATATGTTTTCAAAA-AATGTTTTCAAAACTA
*
9117784 TATATTATATACG-TTTCAAAAAAATGTTTTCAAAACTA
1 TATATTATATATGTTTTC-AAAAAATGTTTTCAAAACTA
**
9117822 TATATTATATA-CATTTCAAAAAAAATGTTTTCAAAACTA
1 TATATTATATATGTTTTC--AAAAAATGTTTTCAAAACTA
* *
9117861 TATGTTGTATATG-TTTCAAAAAAATGTTTTCAAAACTA
1 TATATTATATATGTTTTC-AAAAAATGTTTTCAAAACTA
*
9117899 TATATTATATACG-TTTCAAAAAAATGTTTTCAAAACTA
1 TATATTATATATGTTTTC-AAAAAATGTTTTCAAAACTA
* *
9117937 TAAATTATATATGTTTTCAAAAAATGTTTTCAAAATTA
1 TATATTATATATGTTTTCAAAAAATGTTTTCAAAACTA
9117975 TATATTATATATG-TTTCAAAAAATGTTTTCAAAACTA
1 TATATTATATATGTTTTCAAAAAATGTTTTCAAAACTA
*
9118012 TATATTATATACGTTTTCAAAAAATGTTTTCAAAA--A
1 TATATTATATATGTTTTCAAAAAATGTTTTCAAAACTA
9118048 CTATATTATATATGTT
1 -TATATTATATATGTT
9118064 ATATATACTA
Statistics
Matches: 432, Mismatches: 34, Indels: 61
0.82 0.06 0.12
Matches are distributed among these distances:
33 1 0.00
34 3 0.01
35 28 0.06
36 97 0.22
37 98 0.23
38 162 0.38
39 43 0.10
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.44
Consensus pattern (38 bp):
TATATTATATATGTTTTCAAAAAATGTTTTCAAAACTA
Found at i:9117877 original size:77 final size:76
Alignment explanation
Indices: 9117592--9118053 Score: 528
Period size: 75 Copynumber: 6.2 Consensus size: 76
9117582 TCCAAATTCA
* * * *
9117592 TTTTAAAAACTATATATTATA-A-GTTTTCAAAAATAT-TTTTTAAAACTATATATTAT-T-TGT
1 TTTTCAAAACTATATATTATATACG-TTTCAAAAAAATGTTTTCAAAACTATATATTATATACGT
*
9117652 TTTCAAAAAA-A
65 TTTCAAAAAATG
** **
9117663 AATTCAAAA-TCATATATTATAT--GTTTTCAAAAGTAT-TTTT-AGAAACTATATA-T-TATAC
1 TTTTCAAAACT-ATATATTATATACG-TTTCAAAAAAATGTTTTCA-AAACTATATATTATATAC
* *
9117721 TTTTTCAAAAGTAT-
63 GTTTTCAAAA-AATG
* *
9117735 TTTTCAAAACTATATATTATATATGTTT-AAAACAATGTTTTCAAAACTATATATTATATACG-T
1 TTTTCAAAACTATATATTATATACGTTTCAAAAAAATGTTTTCAAAACTATATATTATATACGTT
9117798 TTCAAAAAAATG
66 TTC-AAAAAATG
* * * *
9117810 TTTTCAAAACTATATATTATATACATTTCAAAAAAAATGTTTTCAAAACTATATGTTGTATATG-
1 TTTTCAAAACTATATATTATATACGTTTC-AAAAAAATGTTTTCAAAACTATATATTATATACGT
9117874 TTTCAAAAAAATG
65 TTTC-AAAAAATG
* *
9117887 TTTTCAAAACTATATATTATATACGTTTCAAAAAAATGTTTTCAAAACTATAAATTATATATGTT
1 TTTTCAAAACTATATATTATATACGTTTCAAAAAAATGTTTTCAAAACTATATATTATATACGTT
9117952 TTCAAAAAATG
66 TTCAAAAAATG
* *
9117963 TTTTCAAAATTATATATTATATATGTTTC-AAAAAATGTTTTCAAAACTATATATTATATACGTT
1 TTTTCAAAACTATATATTATATACGTTTCAAAAAAATGTTTTCAAAACTATATATTATATACGTT
9118027 TTCAAAAAATG
66 TTCAAAAAATG
9118038 TTTTCAAAAACTATAT
1 TTTTC-AAAACTATAT
9118054 TATATATGTT
Statistics
Matches: 343, Mismatches: 28, Indels: 35
0.84 0.07 0.09
Matches are distributed among these distances:
69 1 0.00
70 4 0.01
71 52 0.15
72 25 0.07
73 18 0.05
74 9 0.03
75 84 0.24
76 75 0.22
77 75 0.22
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.43
Consensus pattern (76 bp):
TTTTCAAAACTATATATTATATACGTTTCAAAAAAATGTTTTCAAAACTATATATTATATACGTT
TTCAAAAAATG
Found at i:9117965 original size:13 final size:13
Alignment explanation
Indices: 9117947--9117971 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9117937 TAAATTATAT
9117947 ATGTTTTCAAAAA
1 ATGTTTTCAAAAA
9117960 ATGTTTTCAAAA
1 ATGTTTTCAAAA
9117972 TTATATATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (13 bp):
ATGTTTTCAAAAA
Found at i:9131063 original size:39 final size:37
Alignment explanation
Indices: 9130982--9131409 Score: 356
Period size: 37 Copynumber: 11.4 Consensus size: 37
9130972 TTCCAAATTC
* * * *
9130982 TTTTTAAAAACTACATATTATAAGTTTTTAAAAATATT
1 TTTTTAAAAACTATATATTATATGTTTTCAAAAA-ATA
9131020 TTTTTAAAAAAACTATATATTATATGTTTTCAAAAAATA
1 TTTTT--AAAAACTATATATTATATGTTTTCAAAAAATA
* * * * *
9131059 TTTTTCAAAACCATTATATTTTATATG-TTTC-CAAATTC
1 TTTTT-AAAA--ACTATATATTATATGTTTTCAAAAAATA
* * * *
9131097 TTTTTAAAAACTACATATTATAAGTTTTTAAAAATATTT
1 TTTTTAAAAACTATATATTATATGTTTTCAAAAA-A-TA
*
9131136 TTTTTAAAAACTATATATTATATGTTTTCAAAAAATG
1 TTTTTAAAAACTATATATTATATGTTTTCAAAAAATA
* * * *
9131173 TTTTTAAAATC-ATATATTGTACGTTTTC-AAAAGTA
1 TTTTTAAAAACTATATATTATATGTTTTCAAAAAATA
* *
9131208 -TTTTAAAAACTATATATTATACGTTTTC-AAAAGTA
1 TTTTTAAAAACTATATATTATATGTTTTCAAAAAATA
* *
9131243 TTTTTCAAAATTATATATTATAT-TTGTTACAAAAAAT-
1 TTTTTAAAAACTATATATTATATGTT-TT-CAAAAAATA
* * *
9131280 GTTTTCAAAATTATATATTATATACG-TTTCAAAAAAT-
1 TTTTTAAAAACTATATATTATAT--GTTTTCAAAAAATA
* * * *
9131317 GTTTTCAAAACTATATATTATATATGTTTCAAAAAAAA
1 TTTTTAAAAACTATATATTATATGT-TTTCAAAAAATA
*
9131355 TATTTTCAAAACTATATATTATATACGTTTTCAAAAAATA
1 T-TTTTAAAAACTATATATTATAT--GTTTTCAAAAAATA
*
9131395 -TTTTCAAAACTATAT
1 TTTTTAAAAACTATAT
9131410 TATATACGTT
Statistics
Matches: 328, Mismatches: 40, Indels: 44
0.80 0.10 0.11
Matches are distributed among these distances:
34 9 0.03
35 41 0.12
36 39 0.12
37 81 0.25
38 41 0.12
39 66 0.20
40 50 0.15
41 1 0.00
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.45
Consensus pattern (37 bp):
TTTTTAAAAACTATATATTATATGTTTTCAAAAAATA
Found at i:9135092 original size:15 final size:14
Alignment explanation
Indices: 9135059--9135097 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
9135049 AGTGGAAAGT
9135059 AATCTCTGCAAATA
1 AATCTCTGCAAATA
9135073 AATCTCTGCGTAAA-A
1 AATCTCTGC--AAATA
9135088 AATCTCTGCA
1 AATCTCTGCA
9135098 TATAGACAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
13 1 0.04
14 9 0.39
15 10 0.43
16 3 0.13
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.28
Consensus pattern (14 bp):
AATCTCTGCAAATA
Found at i:9141704 original size:16 final size:16
Alignment explanation
Indices: 9141657--9141704 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
9141647 ACAACAATCC
9141657 AAACTTTCCGATAAAA
1 AAACTTTCCGATAAAA
** *
9141673 TTACTTATCC-AAAAAA
1 AAACTT-TCCGATAAAA
9141689 AAACTTTCCGATAAAA
1 AAACTTTCCGATAAAA
9141705 TTCTTGAGCA
Statistics
Matches: 24, Mismatches: 6, Indels: 4
0.71 0.18 0.12
Matches are distributed among these distances:
15 3 0.12
16 18 0.75
17 3 0.12
ACGTcount: A:0.50, C:0.19, G:0.04, T:0.27
Consensus pattern (16 bp):
AAACTTTCCGATAAAA
Found at i:9146369 original size:16 final size:16
Alignment explanation
Indices: 9146348--9146383 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
9146338 ATTATCCGAT
9146348 CTGTTTTCAACCTGAC
1 CTGTTTTCAACCTGAC
9146364 CTGTTTTCAACCTGAC
1 CTGTTTTCAACCTGAC
9146380 CTGT
1 CTGT
9146384 AAATGATCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.17, C:0.31, G:0.14, T:0.39
Consensus pattern (16 bp):
CTGTTTTCAACCTGAC
Found at i:9146662 original size:14 final size:14
Alignment explanation
Indices: 9146640--9146686 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
9146630 TGCAAAGGAA
*
9146640 AATTAATATAGTTT
1 AATTTATATAGTTT
9146654 AATTTATATA----
1 AATTTATATAGTTT
9146664 AA-TTATATAGTTT
1 AATTTATATAGTTT
9146677 AATTTATATA
1 AATTTATATA
9146687 AAGAAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
9 7 0.26
10 2 0.07
13 2 0.07
14 16 0.59
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (14 bp):
AATTTATATAGTTT
Found at i:9146673 original size:23 final size:24
Alignment explanation
Indices: 9146639--9146688 Score: 93
Period size: 23 Copynumber: 2.1 Consensus size: 24
9146629 ATGCAAAGGA
9146639 AAATTAATATAGTTTAATTTATAT
1 AAATTAATATAGTTTAATTTATAT
9146663 AAATT-ATATAGTTTAATTTATAT
1 AAATTAATATAGTTTAATTTATAT
9146686 AAA
1 AAA
9146689 GAAAAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 21 0.81
24 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (24 bp):
AAATTAATATAGTTTAATTTATAT
Found at i:9146986 original size:18 final size:18
Alignment explanation
Indices: 9146913--9146978 Score: 132
Period size: 18 Copynumber: 3.7 Consensus size: 18
9146903 AATAATATAA
9146913 ATATAAACTATACCGTTT
1 ATATAAACTATACCGTTT
9146931 ATATAAACTATACCGTTT
1 ATATAAACTATACCGTTT
9146949 ATATAAACTATACCGTTT
1 ATATAAACTATACCGTTT
9146967 ATATAAACTATA
1 ATATAAACTATA
9146979 TACTTTATTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 48 1.00
ACGTcount: A:0.42, C:0.15, G:0.05, T:0.38
Consensus pattern (18 bp):
ATATAAACTATACCGTTT
Found at i:9146986 original size:36 final size:36
Alignment explanation
Indices: 9146913--9146986 Score: 123
Period size: 36 Copynumber: 2.1 Consensus size: 36
9146903 AATAATATAA
*
9146913 ATATAAACTATACCGTTTATATAAACTATACCGTTT
1 ATATAAACTATACCGTTTATATAAACTATAACGTTT
9146949 ATATAAACTATACCGTTTATATAAACTATATAC-TTT
1 ATATAAACTATACCGTTTATATAAACTATA-ACGTTT
9146985 AT
1 AT
9146987 TACTTTATAT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 35 0.97
37 1 0.03
ACGTcount: A:0.41, C:0.15, G:0.04, T:0.41
Consensus pattern (36 bp):
ATATAAACTATACCGTTTATATAAACTATAACGTTT
Found at i:9147235 original size:20 final size:20
Alignment explanation
Indices: 9147192--9147232 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
9147182 AATTTTTCTA
*
9147192 TTCCCTTTAAATTTCCCAAT
1 TTCCCTCTAAATTTCCCAAT
9147212 TTCCCTCTAAA-TTCCCAAT
1 TTCCCTCTAAATTTCCCAAT
9147231 TT
1 TT
9147233 TCCTATATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.24, C:0.32, G:0.00, T:0.44
Consensus pattern (20 bp):
TTCCCTCTAAATTTCCCAAT
Found at i:9147357 original size:2 final size:2
Alignment explanation
Indices: 9147350--9147389 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
9147340 ACTTTGAATA
9147350 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
9147390 GACACCATCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9149962 original size:83 final size:80
Alignment explanation
Indices: 9149720--9150023 Score: 229
Period size: 83 Copynumber: 3.7 Consensus size: 80
9149710 AATTGAGTGG
* * * * * * *
9149720 TAATTTAGCGGCGTTTATAGCTAAAACG-TCGGAATAGATTTGTTTACAGTTGCATTT-TTCAAT
1 TAATTTAGCGGCGTTTATAGAT-AAACGCT-GCAATAGGTTTGTTTATAGTGGCATTTGTCCAAA
* *
9149783 AAACGTCGCAATAGAGTAG
64 AAACGT-GTAATAGAG-AA
* * * * ** *
9149802 TAATTTAGCGGCGTTTGTATAAAAATGCCACAATAGGGTTGTTTATAGTGGCATTTGTCCAACAA
1 TAATTTAGCGGCGTTTATAGATAAACGCTGCAATAGGTTTGTTTATAGTGGCATTTGTCC-A-AA
*
9149867 ACAAC-TCT-ATAGAGAA
64 A-AACGTGTAATAGAGAA
* * *
9149883 TTAATTTAGCGGCGTTTATCAGATAAACGCTGCAATAGGTTTGTTTATAGCGGCGTTTGTGCAAA
1 -TAATTTAGCGGCGTTTAT-AGATAAACGCTGCAATAGGTTTGTTTATAGTGGCATTTGTCCAAA
*
9149948 AAACGTGGTAATAGATTAA
64 AAACGT-GTAATAGA-GAA
* * * * * *
9149967 TAATTTAGCGGCGTTTGTTATACAAACTCTGCCATATGTTTGTTTATAGTGGCATTT
1 TAATTTAGCGGCGTTT-ATAGATAAACGCTGCAATAGGTTTGTTTATAGTGGCATTT
9150024 TTTTAAAAAT
Statistics
Matches: 173, Mismatches: 37, Indels: 23
0.74 0.16 0.10
Matches are distributed among these distances:
80 3 0.02
81 30 0.17
82 45 0.26
83 86 0.50
84 6 0.03
85 3 0.02
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.35
Consensus pattern (80 bp):
TAATTTAGCGGCGTTTATAGATAAACGCTGCAATAGGTTTGTTTATAGTGGCATTTGTCCAAAAA
ACGTGTAATAGAGAA
Found at i:9150449 original size:22 final size:22
Alignment explanation
Indices: 9150402--9150449 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
9150392 TGTTTTTCTG
*
9150402 CTTTCGAATACAAAAATAATAG
1 CTTTCGAATACAAAAATAATAA
** *
9150424 CTTTCGAATATGATAATAATAA
1 CTTTCGAATACAAAAATAATAA
9150446 CTTT
1 CTTT
9150450 TCAAAACGTG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.44, C:0.12, G:0.08, T:0.35
Consensus pattern (22 bp):
CTTTCGAATACAAAAATAATAA
Found at i:9154396 original size:28 final size:26
Alignment explanation
Indices: 9154365--9154441 Score: 104
Period size: 24 Copynumber: 3.0 Consensus size: 26
9154355 CTTAGGATGC
*
9154365 ATGAAGTGTTGTTTTTAATAGACAAATA
1 ATGAAGTGTTG-TTTTAAGAGACAAA-A
9154393 ATGAAGTGTTGTTTTAAGAGAC--AA
1 ATGAAGTGTTGTTTTAAGAGACAAAA
*
9154417 ATGAAGTATTGTTTTAAGAGACAAA
1 ATGAAGTGTTGTTTTAAGAGACAAA
9154442 CTTATTATGA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
24 22 0.49
25 1 0.02
26 1 0.02
27 10 0.22
28 11 0.24
ACGTcount: A:0.40, C:0.04, G:0.21, T:0.35
Consensus pattern (26 bp):
ATGAAGTGTTGTTTTAAGAGACAAAA
Found at i:9154612 original size:18 final size:18
Alignment explanation
Indices: 9154589--9154623 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
9154579 TAGCAAATAA
*
9154589 ATGTGAACTTAAATTATT
1 ATGTGAAATTAAATTATT
9154607 ATGTGAAATTAAATTAT
1 ATGTGAAATTAAATTAT
9154624 GCGTGCTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.11, T:0.43
Consensus pattern (18 bp):
ATGTGAAATTAAATTATT
Found at i:9156733 original size:17 final size:17
Alignment explanation
Indices: 9156711--9156755 Score: 90
Period size: 17 Copynumber: 2.6 Consensus size: 17
9156701 AATTAATTCA
9156711 TTTTTTTATTACTCATG
1 TTTTTTTATTACTCATG
9156728 TTTTTTTATTACTCATG
1 TTTTTTTATTACTCATG
9156745 TTTTTTTATTA
1 TTTTTTTATTA
9156756 TAGATATCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.18, C:0.09, G:0.04, T:0.69
Consensus pattern (17 bp):
TTTTTTTATTACTCATG
Found at i:9158328 original size:23 final size:23
Alignment explanation
Indices: 9158279--9158329 Score: 79
Period size: 21 Copynumber: 2.3 Consensus size: 23
9158269 CAGCGGAAGT
*
9158279 AGAGAAAGAAGCAGCGACAGCAC
1 AGAGAGAGAAGCAGCGACAGCAC
9158302 --AGAGAGAAGCAGCGACAGCAC
1 AGAGAGAGAAGCAGCGACAGCAC
9158323 AGAGAGA
1 AGAGAGA
9158330 AGTATCATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 20 0.80
23 5 0.20
ACGTcount: A:0.47, C:0.20, G:0.33, T:0.00
Consensus pattern (23 bp):
AGAGAGAGAAGCAGCGACAGCAC
Found at i:9158344 original size:23 final size:21
Alignment explanation
Indices: 9158285--9158331 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
9158275 AAGTAGAGAA
9158285 AGAAGCAGCGACAGCACAGAG
1 AGAAGCAGCGACAGCACAGAG
9158306 AGAAGCAGCGACAGCACAGAG
1 AGAAGCAGCGACAGCACAGAG
9158327 AGAAG
1 AGAAG
9158332 TATCATATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.45, C:0.21, G:0.34, T:0.00
Consensus pattern (21 bp):
AGAAGCAGCGACAGCACAGAG
Found at i:9158877 original size:43 final size:41
Alignment explanation
Indices: 9158830--9158950 Score: 116
Period size: 43 Copynumber: 2.8 Consensus size: 41
9158820 TACTACGACG
* * *
9158830 TTTGTGGGAAAAACGCCGCAAAATATCAAAACCTTCTGCAGC
1 TTTGTGGG-AAAACGCCGCTAAATATCAACACCTACTGCAGC
* * * * *
9158872 ATTTGTAAGTAAAACGCAGCTAAATCTCAACACCTACTGCGGC
1 -TTTGT-GGGAAAACGCCGCTAAATATCAACACCTACTGCAGC
*
9158915 TCTTGTAGGGAAAACGCCGCTAAACATCAACACCTA
1 T-TTGT-GGGAAAACGCCGCTAAATATCAACACCTA
9158951 TTGTGGCGTT
Statistics
Matches: 63, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
42 1 0.02
43 61 0.97
44 1 0.02
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (41 bp):
TTTGTGGGAAAACGCCGCTAAATATCAACACCTACTGCAGC
Found at i:9162508 original size:3 final size:3
Alignment explanation
Indices: 9162502--9162558 Score: 69
Period size: 3 Copynumber: 18.0 Consensus size: 3
9162492 TTTTTTCAGT
* *
9162502 TTA TTA TTA TTA TTA TTA TTA TTA TAA ATA TTA TTA TTA TATA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA T-TA
9162549 TATA TTA TTA
1 T-TA TTA TTA
9162559 AACAAAATAT
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
3 38 0.78
4 11 0.22
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:9163767 original size:12 final size:12
Alignment explanation
Indices: 9163750--9163784 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
9163740 ATTTAATCAC
9163750 TGTTTATATATA
1 TGTTTATATATA
9163762 TGTTTATATATA
1 TGTTTATATATA
9163774 TGTTTATATAT
1 TGTTTATATAT
9163785 TTTAGGTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.09, T:0.60
Consensus pattern (12 bp):
TGTTTATATATA
Found at i:9164069 original size:2 final size:2
Alignment explanation
Indices: 9164057--9164115 Score: 109
Period size: 2 Copynumber: 29.5 Consensus size: 2
9164047 ATCTTAGTTT
*
9164057 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9164099 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
9164116 TTGTTTAAAT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:9164378 original size:141 final size:140
Alignment explanation
Indices: 9164128--9164386 Score: 337
Period size: 141 Copynumber: 1.8 Consensus size: 140
9164118 GTTTAAATAA
* ** * *
9164128 TAATGTTTATTTATTTCTAATATATAAGAAAAGGGCTGTCTTAAAGCACCTAGAAGTCTTTTTTT
1 TAATATTTATTTATTTCTAATATATAAGAAAAGAACTGTCTTAAAGCACCTAGAAGTCCTTTTCT
* *
9164193 GATATTCTTAAATAAATAAATATCCTATTTTTATATAAATTATATATATTAATTTATTTTAATAG
66 GATATTCTTAAATAAATAAATATCCTATATTTATAT-AATTATATAAATTAATTTATTTTAATAG
9164258 AAATGTTTTAT
130 AAATGTTTTAT
* *
9164269 TAATATTTATTTATTTTTTAATAT-TAAGAAATGAACTGTCTTAAAGCACCTAGAAGTCCTTTTC
1 TAATATTTATTTA-TTTCTAATATATAAGAAAAGAACTGTCTTAAAGCACCTAGAAGTCCTTTTC
**
9164333 TGATATT-TCTAAAGTAAATAAATATTTTATAAATTTATAT-A-TATATAAATTAAT
65 TGATATTCT-TAAA-TAAATAAATATCCTAT--ATTTATATAATTATATAAATTAAT
9164387 AGATTTTCTT
Statistics
Matches: 102, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
140 1 0.01
141 70 0.69
142 24 0.24
144 7 0.07
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.46
Consensus pattern (140 bp):
TAATATTTATTTATTTCTAATATATAAGAAAAGAACTGTCTTAAAGCACCTAGAAGTCCTTTTCT
GATATTCTTAAATAAATAAATATCCTATATTTATATAATTATATAAATTAATTTATTTTAATAGA
AATGTTTTAT
Found at i:9172960 original size:72 final size:74
Alignment explanation
Indices: 9172804--9173054 Score: 254
Period size: 75 Copynumber: 3.4 Consensus size: 74
9172794 ATCAACAAGA
* * * * * * * **
9172804 AGCAAATATTGGGGTATGCTGAAAACCTATTTCAATCATAATCACGAACATTGATGCATTTTGAA
1 AGCAAATGTTGGGGCATACTGAAAGCCCATTTCAATCA-AATCAAGAATATTGACACATTTTGAA
* *** *
9172869 TGTTTACGTC
65 CGTTTGTATT
* * ** *
9172879 AACAAATGTTGGGGCATACTGCAAGCCCATTTCAATC-AAT-TGGAATATTGGCACATTTTGAAC
1 AGCAAATGTTGGGGCATACTGAAAGCCCATTTCAATCAAATCAAGAATATTGACACATTTTGAAC
9172942 GTTTGTATT
66 GTTTGTATT
* *
9172951 AGCAAATGTTGGGGCATGCTGAAAGCCCATTTCAATCAGAATCAAGAATGTTGACACATTTTGAA
1 AGCAAATGTTGGGGCATACTGAAAGCCCATTTCAATCA-AATCAAGAATATTGACACATTTTGAA
9173016 CGTTTGTATT
65 CGTTTGTATT
* * *
9173026 AGCCAATGTTGGGGCATGCTGAAGGCCCA
1 AGCAAATGTTGGGGCATACTGAAAGCCCA
9173055 CATCGTCATA
Statistics
Matches: 146, Mismatches: 27, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
72 55 0.38
73 3 0.02
74 3 0.02
75 85 0.58
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (74 bp):
AGCAAATGTTGGGGCATACTGAAAGCCCATTTCAATCAAATCAAGAATATTGACACATTTTGAAC
GTTTGTATT
Found at i:9174241 original size:22 final size:22
Alignment explanation
Indices: 9174216--9174292 Score: 75
Period size: 22 Copynumber: 3.5 Consensus size: 22
9174206 ATCTACACTT
9174216 TTCAAAGATGATAGAATCTTTC
1 TTCAAAGATGATAGAATCTTTC
** * *
9174238 TTCAAAGATGATAGCCTATCTC
1 TTCAAAGATGATAGAATCTTTC
* * *
9174260 TTTAAAGATAATAGATTCTCTT-
1 TTCAAAGATGATAGAATCT-TTC
9174282 TTCAAAGATGA
1 TTCAAAGATGA
9174293 AAGCTTTATT
Statistics
Matches: 42, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
22 41 0.98
23 1 0.02
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.36
Consensus pattern (22 bp):
TTCAAAGATGATAGAATCTTTC
Found at i:9175007 original size:45 final size:45
Alignment explanation
Indices: 9174943--9175520 Score: 985
Period size: 45 Copynumber: 12.8 Consensus size: 45
9174933 CTATTTCCCA
*
9174943 CATCTGTAAACCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
9174988 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTC-AAAACCTTCGGGT
*
9175034 CATCTGTAAGCCCTTCAGTGCATGATGTTTTAAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* * *
9175079 CATCTGTATGCCCTTCAGTGCATGATGTTTTAAAAACCTTCAGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
9175124 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
*
9175169 CATCTGTAAACCCTTCAGTGCATGATGTTTTCGAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTC-AAAACCTTCGGGT
*
9175215 CATCTGTAAGCCCTTCAGTGCATGATGTTATCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
9175260 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
*
9175305 CATCTGTAAGCCCTTCAGTGCTTGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* *
9175350 CATATGTAAGCCCTTCAGTGCTTGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
9175395 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTC-AAAACCTTCGGGT
* *
9175441 CATCTGTAAGCCCTTCAATGCTTGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* * * *
9175486 CATCCGTAAGACCTACAGTGCAGGATGTTTTCAAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAA
9175521 CAAGATTTTA
Statistics
Matches: 507, Mismatches: 23, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
45 377 0.74
46 130 0.26
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (45 bp):
CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
Found at i:9175206 original size:136 final size:136
Alignment explanation
Indices: 9174943--9175520 Score: 989
Period size: 136 Copynumber: 4.3 Consensus size: 136
9174933 CTATTTCCCA
*
9174943 CATCTGTAAACCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTG
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTG
*
9175008 CATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTAAAAACCT
66 CATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCT
9175073 TCGGGT
131 TCGGGT
* * *
9175079 CATCTGTATGCCCTTCAGTGCATGATGTTTTAAAAACCTTCAGGTCATCTGTAAGCCCTTCAGTG
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTG
*
9175144 CATGATGTTTTC-AAAACCTTCGGGTCATCTGTAAACCCTTCAGTGCATGATGTTTTCGAAAACC
66 CATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTC-AAAACC
9175208 TTCGGGT
130 TTCGGGT
*
9175215 CATCTGTAAGCCCTTCAGTGCATGATGTTATCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTG
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTG
*
9175280 CATGATGTTTTC-AAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCTTGATGTTTTCAAAACCT
66 CATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCT
9175344 TCGGGT
131 TCGGGT
* *
9175350 CATATGTAAGCCCTTCAGTGCTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTG
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTG
* *
9175415 CATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGCCCTTCAATGCTTGATGTTTTCAAAACCT
66 CATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCT
9175480 TCGGGT
131 TCGGGT
* * * *
9175486 CATCCGTAAGACCTACAGTGCAGGATGTTTTCAAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAA
9175521 CAAGATTTTA
Statistics
Matches: 418, Mismatches: 22, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
135 130 0.31
136 288 0.69
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (136 bp):
CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTG
CATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCT
TCGGGT
Found at i:9175253 original size:181 final size:180
Alignment explanation
Indices: 9174943--9175520 Score: 985
Period size: 181 Copynumber: 3.2 Consensus size: 180
9174933 CTATTTCCCA
*
9174943 CATCTGTAAACCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTG
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTG
*
9175008 CATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTAAAAACCT
66 CATGATGTTTTC-AAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCT
* * *
9175073 TCGGGTCATCTGTATGCCCTTCAGTGCATGATGTTTTAAAAACCTTCAGGT
130 TCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
*
9175124 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAACCCTTCAGTG
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTG
*
9175189 CATGATGTTTTCGAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTATCAAAACCT
66 CATGATGTTTTC-AAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCT
9175254 TCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
130 TCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* *
9175305 CATCTGTAAGCCCTTCAGTGCTTGATGTTTTCAAAACCTTCGGGTCATATGTAAGCCCTTCAGTG
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTG
*
9175370 CTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAACCT
66 CATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTC-AAAACCT
* *
9175435 TCGGGTCATCTGTAAGCCCTTCAATGCTTGATGTTTTCAAAACCTTCGGGT
130 TCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* * * *
9175486 CATCCGTAAGACCTACAGTGCAGGATGTTTTCAAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAA
9175521 CAAGATTTTA
Statistics
Matches: 376, Mismatches: 20, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
180 44 0.12
181 332 0.88
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (180 bp):
CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTG
CATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTT
CGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
Found at i:9175780 original size:3 final size:3
Alignment explanation
Indices: 9175774--9175821 Score: 69
Period size: 3 Copynumber: 15.3 Consensus size: 3
9175764 TTTTTCCAGT
*
9175774 TTA TTA TTA TTA TTA TTA TTA TTA TATA ATA TTA TTA TTAA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TT-A TTA TTA
9175821 T
1 T
9175822 ATATATATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
3 36 0.88
4 5 0.12
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:9175808 original size:10 final size:10
Alignment explanation
Indices: 9175775--9175862 Score: 60
Period size: 12 Copynumber: 8.6 Consensus size: 10
9175765 TTTTCCAGTT
*
9175775 TATTAT-TAT
1 TATTATATAA
*
9175784 TATTAT-TAT
1 TATTATATAA
9175793 TATTATATAA
1 TATTATATAA
9175803 TATTATTATTAA
1 TATTA-TA-TAA
9175815 TTATTATAT-A
1 -TATTATATAA
9175825 TA-TATAT-A
1 TATTATATAA
9175833 TATATATATATA
1 TAT-TATATA-A
9175845 TATATATATATA
1 TAT-TATATA-A
9175857 TATTAT
1 TATTAT
9175863 TAAAACAAAT
Statistics
Matches: 70, Mismatches: 1, Indels: 14
0.82 0.01 0.16
Matches are distributed among these distances:
8 8 0.11
9 17 0.24
10 13 0.19
11 6 0.09
12 21 0.30
13 5 0.07
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (10 bp):
TATTATATAA
Found at i:9175826 original size:2 final size:2
Alignment explanation
Indices: 9175819--9175859 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
9175809 TATTAATTAT
9175819 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9175860 TATTAAAACA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9176698 original size:17 final size:17
Alignment explanation
Indices: 9176676--9176709 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
9176666 AGAAATTTTT
9176676 CTCTCTTTCTGAAAGAG
1 CTCTCTTTCTGAAAGAG
9176693 CTCTCTTTCTGAAAGAG
1 CTCTCTTTCTGAAAGAG
9176710 AGAGAATGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.35
Consensus pattern (17 bp):
CTCTCTTTCTGAAAGAG
Found at i:9177141 original size:12 final size:12
Alignment explanation
Indices: 9177124--9177159 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
9177114 ATTTAATCAT
9177124 TGTTTATATATA
1 TGTTTATATATA
9177136 TGTTTATATATA
1 TGTTTATATATA
*
9177148 TGGTTTGTATAT
1 T-GTTTATATAT
9177160 TTTAGGTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 13 0.59
13 9 0.41
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.58
Consensus pattern (12 bp):
TGTTTATATATA
Found at i:9177371 original size:17 final size:16
Alignment explanation
Indices: 9177322--9177371 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
9177312 AATACTATAT
*
9177322 TTTTAAT-TTCTTTTA
1 TTTTAATATTATTTTA
9177337 TTTTAATCATTA-TTTA
1 TTTTAAT-ATTATTTTA
9177353 TTTTCAATATTATTTTA
1 TTTT-AATATTATTTTA
9177370 TT
1 TT
9177372 ATTACTTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
15 7 0.23
16 12 0.40
17 11 0.37
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTAATATTATTTTA
Found at i:9177409 original size:15 final size:14
Alignment explanation
Indices: 9177360--9177420 Score: 56
Period size: 14 Copynumber: 4.3 Consensus size: 14
9177350 TTATTTTCAA
*
9177360 TATTATTTTATTAT
1 TATTATTTCATTAT
9177374 TACTT-TTAT-ATT-T
1 TA-TTATT-TCATTAT
9177387 TGATTATTTCATTAAT
1 T-ATTATTTCATT-AT
9177403 TATTATTTCATTAT
1 TATTATTTCATTAT
9177417 TATT
1 TATT
9177421 TTTTATCTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 5 0.12
14 19 0.47
15 14 0.35
16 2 0.05
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.66
Consensus pattern (14 bp):
TATTATTTCATTAT
Found at i:9177440 original size:2 final size:2
Alignment explanation
Indices: 9177435--9177509 Score: 150
Period size: 2 Copynumber: 37.5 Consensus size: 2
9177425 ATCTTAGTTT
9177435 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9177477 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9177510 TTGTTTAAAT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 73 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9179057 original size:36 final size:36
Alignment explanation
Indices: 9178975--9179169 Score: 241
Period size: 36 Copynumber: 5.4 Consensus size: 36
9178965 AGAAACACTT
* * * *
9178975 TCAAATGAGATAAAATCTATTTTAAGAAAAGCAA-C
1 TCAAGTGAGATAAAATATGTTTTAAGAAAAACAATC
*
9179010 TCAAGTAAGATAAAATATGTTTTAAGAAAAACAATC
1 TCAAGTGAGATAAAATATGTTTTAAGAAAAACAATC
*
9179046 TCAAGTGAGATAAAGTATGTTTTAAGAAAAACAATC
1 TCAAGTGAGATAAAATATGTTTTAAGAAAAACAATC
* * *
9179082 TCAAGTGAGATAAAATATATTTTCAG-AAAATAATC
1 TCAAGTGAGATAAAATATGTTTTAAGAAAAACAATC
* * * **
9179117 TCAAGTGAGATTAAGTCTGTTTTTTTGAAAAACAATC
1 TCAAGTGAGATAAAATATG-TTTTAAGAAAAACAATC
9179154 TCAAGTGAGATAAAAT
1 TCAAGTGAGATAAAAT
9179170 CTTTAGTGAA
Statistics
Matches: 137, Mismatches: 20, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
35 52 0.38
36 63 0.46
37 22 0.16
ACGTcount: A:0.47, C:0.09, G:0.14, T:0.30
Consensus pattern (36 bp):
TCAAGTGAGATAAAATATGTTTTAAGAAAAACAATC
Found at i:9179117 original size:71 final size:72
Alignment explanation
Indices: 9178957--9179169 Score: 259
Period size: 71 Copynumber: 3.0 Consensus size: 72
9178947 GAAAAAAATC
* * * * * * * * *
9178957 ATTTCAAGAGAAACACTTTCAAATGAGATAAAATCTATTTTAAGAAAAGCAA-CTCAAGTAAGAT
1 ATTTTAAGAAAAACAATCTCAAGTGAGATAAAGTCTGTTTTAAGAAAAACAATCTCAAGTGAGAT
9179021 AAAATAT
66 AAAATAT
* *
9179028 GTTTTAAGAAAAACAATCTCAAGTGAGATAAAGTATGTTTTAAGAAAAACAATCTCAAGTGAGAT
1 ATTTTAAGAAAAACAATCTCAAGTGAGATAAAGTCTGTTTTAAGAAAAACAATCTCAAGTGAGAT
9179093 AAAATAT
66 AAAATAT
* * * **
9179100 ATTTTCAG-AAAATAATCTCAAGTGAGATTAAGTCTGTTTTTTTGAAAAACAATCTCAAGTGAGA
1 ATTTTAAGAAAAACAATCTCAAGTGAGATAAAGTCTG-TTTTAAGAAAAACAATCTCAAGTGAGA
9179164 TAAAAT
65 TAAAAT
9179170 CTTTAGTGAA
Statistics
Matches: 122, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
71 67 0.55
72 55 0.45
ACGTcount: A:0.47, C:0.10, G:0.14, T:0.30
Consensus pattern (72 bp):
ATTTTAAGAAAAACAATCTCAAGTGAGATAAAGTCTGTTTTAAGAAAAACAATCTCAAGTGAGAT
AAAATAT
Found at i:9179476 original size:116 final size:116
Alignment explanation
Indices: 9179318--9179605 Score: 350
Period size: 116 Copynumber: 2.5 Consensus size: 116
9179308 GTTAAATAAT
* *
9179318 TTCTTCTCATTATGAATTTCTTCTCCCTCATCGAATGAGTTCTTCTTATTATGAACCCTTAC-AT
1 TTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTTATTATGAACCCTT-CTAT
* * * * *
9179382 TGGAAATGTTGATTCACCTCCTTCTGTGATGGACAAATCAAGGTTGAACAAG
65 TGAAAATGTTGATCCACCTACTTCTGTGATAGACAAACCAAGGTTGAACAAG
* * *
9179434 TTCTTCTCATTATGAACTTCTTC-CCCTTCATCGGATGGGTTCTT-TCCATTATGAACTCTTCTA
1 TTCTTCTCATTATGAACTTCTTCTCCC-TCATCGGATGAGTTCTTCT-TATTATGAACCCTTCTA
* ** **
9179497 TTGAAAATGTTGATCCACCTATTTCTGTGATAGATGAACCAAGGTTGAACTTG
64 TTGAAAATGTTGATCCACCTACTTCTGTGATAGACAAACCAAGGTTGAACAAG
* * *
9179550 TTCTTCTCGTTATGAACTTCTTCTCCCTCAGT-AGATGTGTTCTTCTTATTATGAAC
1 TTCTTCTCATTATGAACTTCTTCTCCCTCA-TCGGATGAGTTCTTCTTATTATGAAC
9179606 ATTTCCATTA
Statistics
Matches: 147, Mismatches: 19, Indels: 12
0.83 0.11 0.07
Matches are distributed among these distances:
115 5 0.03
116 137 0.93
117 5 0.03
ACGTcount: A:0.23, C:0.22, G:0.15, T:0.40
Consensus pattern (116 bp):
TTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTTATTATGAACCCTTCTATT
GAAAATGTTGATCCACCTACTTCTGTGATAGACAAACCAAGGTTGAACAAG
Found at i:9181804 original size:5 final size:5
Alignment explanation
Indices: 9181794--9181821 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
9181784 AATTAATGTT
9181794 AAATA AAATA AAATA AAATA AAATA AAA
1 AAATA AAATA AAATA AAATA AAATA AAA
9181822 AGATATTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAATA
Found at i:9183240 original size:19 final size:19
Alignment explanation
Indices: 9183216--9183283 Score: 91
Period size: 19 Copynumber: 3.6 Consensus size: 19
9183206 TTGGTTAAAA
*
9183216 TCAAAGTCAACGAGTTGGG
1 TCAAAGTCAACGGGTTGGG
* *
9183235 TCAAAGTCAACGGGTCGAG
1 TCAAAGTCAACGGGTTGGG
* *
9183254 TCAAAGTCAATGGGTTGGA
1 TCAAAGTCAACGGGTTGGG
9183273 TCAAAGTCAAC
1 TCAAAGTCAAC
9183284 AGGTCAGGTT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 41 1.00
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.21
Consensus pattern (19 bp):
TCAAAGTCAACGGGTTGGG
Found at i:9183271 original size:38 final size:38
Alignment explanation
Indices: 9183216--9183288 Score: 110
Period size: 38 Copynumber: 1.9 Consensus size: 38
9183206 TTGGTTAAAA
* *
9183216 TCAAAGTCAACGAGTTGGGTCAAAGTCAACGGGTCGAG
1 TCAAAGTCAACGAGTTGGATCAAAGTCAACAGGTCGAG
* *
9183254 TCAAAGTCAATGGGTTGGATCAAAGTCAACAGGTC
1 TCAAAGTCAACGAGTTGGATCAAAGTCAACAGGTC
9183289 AGGTTGGGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 31 1.00
ACGTcount: A:0.33, C:0.18, G:0.29, T:0.21
Consensus pattern (38 bp):
TCAAAGTCAACGAGTTGGATCAAAGTCAACAGGTCGAG
Found at i:9184469 original size:115 final size:115
Alignment explanation
Indices: 9184264--9184521 Score: 306
Period size: 115 Copynumber: 2.2 Consensus size: 115
9184254 TTTCTCCTTA
* *
9184264 ATCGAATGAGTTCTTCTTATTATGAACCCTTTCATTGGAAATATTGACCCACCTCATTATGTGAT
1 ATCGAATGAGTACTTCTCATTATGAACCCTTTCATTGGAAATATTGACCCACCTCATTATGTGAT
* * * *
9184329 GGGCAAACCAAGGTTGAACAAGTTCTTCTTATTTTGAACTTCTTCCCCTC
66 GGGAAAACCAAGGTCGAACAAGTTCTTCTCATTATGAACTTCTTCCCCTC
* * * ** *
9184379 ATCGAATGGGTACTTCTCATTATTAACCCTTAT-ATTGGAAATGTTGATTCACCTTATTATGTGA
1 ATCGAATGAGTACTTCTCATTATGAACCCTT-TCATTGGAAATATTGACCCACCTCATTATGTGA
* * *
9184443 T-GGAAGAACCAAGGTCGAACATGTTCTTCTCATTATGAACTTTTTTTCCCTC
65 TGGGAA-AACCAAGGTCGAACAAGTTCTTCTCATTATGAAC-TTCTTCCCCTC
* *
9184495 AGTAG-ATGAGTTCTTCTCATTATGAAC
1 A-TCGAATGAGTACTTCTCATTATGAAC
9184522 TCTTCAATTA
Statistics
Matches: 120, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
114 3 0.03
115 85 0.71
116 30 0.25
117 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.38
Consensus pattern (115 bp):
ATCGAATGAGTACTTCTCATTATGAACCCTTTCATTGGAAATATTGACCCACCTCATTATGTGAT
GGGAAAACCAAGGTCGAACAAGTTCTTCTCATTATGAACTTCTTCCCCTC
Found at i:9193246 original size:28 final size:28
Alignment explanation
Indices: 9193205--9193265 Score: 104
Period size: 28 Copynumber: 2.2 Consensus size: 28
9193195 CTTTGCTATT
*
9193205 GATTCTTAAATACAAGAGATGAACATTA
1 GATTCTTAAATACAAGAAATGAACATTA
*
9193233 TATTCTTAAATACAAGAAATGAACATTA
1 GATTCTTAAATACAAGAAATGAACATTA
9193261 GATTC
1 GATTC
9193266 AAAGATGATA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.31
Consensus pattern (28 bp):
GATTCTTAAATACAAGAAATGAACATTA
Found at i:9200030 original size:28 final size:29
Alignment explanation
Indices: 9199978--9200039 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 29
9199968 TTTAATTGTC
* *
9199978 TTTTTTACTAAGTTTGAGGGTCTTATTGA
1 TTTTTTACAAAGTTTGAGGGACTTATTGA
* *
9200007 TTTTTTAGAAAGTTTGA-GGACTTATTTA
1 TTTTTTACAAAGTTTGAGGGACTTATTGA
9200035 TTTTT
1 TTTTT
9200040 ATGAAGAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 14 0.48
29 15 0.52
ACGTcount: A:0.23, C:0.05, G:0.18, T:0.55
Consensus pattern (29 bp):
TTTTTTACAAAGTTTGAGGGACTTATTGA
Found at i:9200093 original size:15 final size:16
Alignment explanation
Indices: 9200051--9200111 Score: 56
Period size: 16 Copynumber: 3.9 Consensus size: 16
9200041 TGAAGAATTA
*
9200051 ATAAATTAT-TTAAAT
1 ATAAAATATATTAAAT
9200066 ATAAAATATATTAAAT
1 ATAAAATATATTAAAT
* *
9200082 CTAAAA-ATATTATAAA
1 ATAAAATATATTA-AAT
*
9200098 ATTAAAT-TATTAAA
1 ATAAAATATATTAAA
9200112 AAAATTTAGC
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
15 16 0.42
16 22 0.58
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (16 bp):
ATAAAATATATTAAAT
Found at i:9203226 original size:15 final size:16
Alignment explanation
Indices: 9203184--9203226 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
9203174 TGAATAATTA
*
9203184 ATAAATTAT-TTAAAT
1 ATAAAATATATTAAAT
9203199 ATAAAATATATTAAAT
1 ATAAAATATATTAAAT
*
9203215 CTAAAA-ATATTA
1 ATAAAATATATTA
9203227 TAAAATTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 14 0.56
16 11 0.44
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (16 bp):
ATAAAATATATTAAAT
Found at i:9204256 original size:26 final size:26
Alignment explanation
Indices: 9204221--9204327 Score: 75
Period size: 27 Copynumber: 4.3 Consensus size: 26
9204211 ATTAAAAAAT
9204221 TTTTA-TCTTTAACTTATTAAATATG
1 TTTTATTCTTTAACTTATTAAATATG
* * *
9204246 TTTTATTCTTTGTAACCTA-AAAATATA
1 TTTTATTC-TT-TAACTTATTAAATATG
* * * *
9204273 TTTTATTATTTTAA-TAATTAACTATT
1 TTTTATT-CTTTAACTTATTAAATATG
9204299 TTTTA-TC-TTAACTTATT-AA-ATG
1 TTTTATTCTTTAACTTATTAAATATG
9204321 TTTTATT
1 TTTTATT
9204328 TCATAACCTA
Statistics
Matches: 62, Mismatches: 13, Indels: 16
0.68 0.14 0.18
Matches are distributed among these distances:
22 7 0.11
23 6 0.10
24 4 0.06
25 7 0.11
26 15 0.24
27 17 0.27
28 6 0.10
ACGTcount: A:0.33, C:0.07, G:0.03, T:0.57
Consensus pattern (26 bp):
TTTTATTCTTTAACTTATTAAATATG
Found at i:9204316 original size:24 final size:24
Alignment explanation
Indices: 9204271--9204327 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
9204261 CCTAAAAATA
*
9204271 TATTTTATTATTTTAATAATTAAC
1 TATTTTATTATCTTAATAATTAAC
* *
9204295 TATTTT-TTATCTTAACTTATTAAA
1 TATTTTATTATCTTAA-TAATTAAC
*
9204319 TGTTTTATT
1 TATTTTATT
9204328 TCATAACCTA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 8 0.30
24 17 0.63
25 2 0.07
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (24 bp):
TATTTTATTATCTTAATAATTAAC
Found at i:9204404 original size:19 final size:18
Alignment explanation
Indices: 9204354--9204395 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
9204344 ATTTTATTCG
9204354 TATTTTAATTTAAAATTA
1 TATTTTAATTTAAAATTA
*
9204372 TATTTTAATCTTAACA-TA
1 TATTTTAAT-TTAAAATTA
9204390 TATTTT
1 TATTTT
9204396 TAATGTTAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (18 bp):
TATTTTAATTTAAAATTA
Found at i:9204427 original size:18 final size:18
Alignment explanation
Indices: 9204395--9204443 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
9204385 ACATATATTT
9204395 TTAATGTTAAGATGTAAAA
1 TTAAT-TTAAGATGTAAAA
* * *
9204414 TTAATTTAATATGTGAAT
1 TTAATTTAAGATGTAAAA
9204432 TTAATTTAAGAT
1 TTAATTTAAGAT
9204444 ATATAAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
18 21 0.81
19 5 0.19
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.45
Consensus pattern (18 bp):
TTAATTTAAGATGTAAAA
Found at i:9204669 original size:16 final size:16
Alignment explanation
Indices: 9204648--9204681 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
9204638 GATTGATGAG
* *
9204648 AAAATATATTAAATTA
1 AAAATAAATTAAAATA
9204664 AAAATAAATTAAAATA
1 AAAATAAATTAAAATA
9204680 AA
1 AA
9204682 TTTAATCATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAATAAATTAAAATA
Found at i:9206486 original size:2 final size:2
Alignment explanation
Indices: 9206479--9206515 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
9206469 ATCAATAATA
9206479 AT AT AT AT AT AT AT AT AT AT A- 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
9206516 TAATGATAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9206502 original size:21 final size:21
Alignment explanation
Indices: 9206476--9206515 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
9206466 AGAATCAATA
9206476 ATAATATATATATATATATAT
1 ATAATATATATATATATATAT
9206497 ATAATATATATATATATAT
1 ATAATATATATATATATAT
9206516 TAATGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
ATAATATATATATATATATAT
Found at i:9211077 original size:17 final size:14
Alignment explanation
Indices: 9211035--9211064 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
9211025 ATTTTGATTT
9211035 ATATTTATTTAATA
1 ATATTTATTTAATA
9211049 ATATTTATTTAATA
1 ATATTTATTTAATA
9211063 AT
1 AT
9211065 TGTATTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
ATATTTATTTAATA
Found at i:9211896 original size:3 final size:3
Alignment explanation
Indices: 9211888--9211915 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
9211878 CCATTTTAAA
9211888 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
9211916 AACAAATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:9213907 original size:21 final size:20
Alignment explanation
Indices: 9213882--9213940 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 20
9213872 ATTTCTAAGT
*
9213882 AAATAAATATCTTATTTATAA
1 AAATAAATAT-ATATTTATAA
*
9213903 AAATAAAAAATATATTTATAA
1 AAAT-AAATATATATTTATAA
*
9213924 AAATCAATATAT-TTTAT
1 AAATAAATATATATTTAT
9213941 TGGAATTATA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 5 0.15
20 6 0.18
21 17 0.52
22 5 0.15
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (20 bp):
AAATAAATATATATTTATAA
Found at i:9221601 original size:24 final size:24
Alignment explanation
Indices: 9221553--9221604 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
9221543 CTAGAGTTTT
*
9221553 GGTTTGGGATCGGATTTGGATTTC
1 GGTTTGGGATCGGATTTGGAGTTC
*
9221577 GGTTTGGGTATTGGATTTGG-GTTC
1 GGTTTGGG-ATCGGATTTGGAGTTC
9221601 GGTT
1 GGTT
9221605 GTTGGGTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 15 0.60
25 10 0.40
ACGTcount: A:0.10, C:0.06, G:0.40, T:0.44
Consensus pattern (24 bp):
GGTTTGGGATCGGATTTGGAGTTC
Found at i:9221609 original size:19 final size:18
Alignment explanation
Indices: 9221550--9221602 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 18
9221540 AGGCTAGAGT
*
9221550 TTTGG-TTTGGGATCGGA
1 TTTGGATTTGGGTTCGGA
* * *
9221567 TTTGGATTTCGGTTTGGG
1 TTTGGATTTGGGTTCGGA
9221585 TATTGGATTTGGGTTCGG
1 T-TTGGATTTGGGTTCGG
9221603 TTGTTGGGTT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
17 5 0.18
18 9 0.32
19 14 0.50
ACGTcount: A:0.09, C:0.06, G:0.40, T:0.45
Consensus pattern (18 bp):
TTTGGATTTGGGTTCGGA
Found at i:9224853 original size:17 final size:17
Alignment explanation
Indices: 9224815--9224868 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 17
9224805 TTTTTTCATT
9224815 TTTTTTATTTATTTTTC
1 TTTTTTATTTATTTTTC
9224832 ATTTTTTATTTATTTTTC
1 -TTTTTTATTTATTTTTC
*
9224850 TTTTCTTCTTT-TTTTTC
1 TTTT-TTATTTATTTTTC
9224867 TT
1 TT
9224869 CAATTTTCTT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
17 12 0.35
18 22 0.65
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTTTATTTATTTTTC
Found at i:9224863 original size:27 final size:26
Alignment explanation
Indices: 9224833--9224922 Score: 74
Period size: 27 Copynumber: 3.2 Consensus size: 26
9224823 TTATTTTTCA
9224833 TTTTTTATTTATTTTTCTTTTCTTCTT
1 TTTTTTATTTATTTTTCTTTT-TTCTT
* * *
9224860 TTTTTTCTTCAATTTTCTTTTTATCTT
1 TTTTTTATTTATTTTTCTTTTT-TCTT
9224887 TTTCACTTTATTT-TTTATTCTTTTATTCTT
1 TTT---TTTATTTATTT-TTCTTTT-TTCTT
*
9224917 TGTTTT
1 TTTTTT
9224923 CTACAGGTGT
Statistics
Matches: 50, Mismatches: 7, Indels: 12
0.72 0.10 0.17
Matches are distributed among these distances:
26 1 0.02
27 28 0.56
29 2 0.04
30 18 0.36
31 1 0.02
ACGTcount: A:0.10, C:0.12, G:0.01, T:0.77
Consensus pattern (26 bp):
TTTTTTATTTATTTTTCTTTTTTCTT
Found at i:9232220 original size:11 final size:10
Alignment explanation
Indices: 9232204--9232319 Score: 50
Period size: 9 Copynumber: 12.1 Consensus size: 10
9232194 GTTGGGTTTG
9232204 TAATAAATATT
1 TAAT-AATATT
9232215 TAATAATATT
1 TAATAATATT
* * *
9232225 TTAT-TTATA
1 TAATAATATT
*
9232234 TAATAATA-A
1 TAATAATATT
*
9232243 TAATAATA-A
1 TAATAATATT
*
9232252 TAATAATA-A
1 TAATAATATT
*
9232261 TAATAATA-A
1 TAATAATATT
*
9232270 TAATAATA-A
1 TAATAATATT
*
9232279 TAATAATA-A
1 TAATAATATT
*
9232288 TAATAATA-A
1 TAATAATATT
*
9232297 TAATAATATAA
1 TAATAATAT-T
9232308 TAATTAATATT
1 TAA-TAATATT
9232319 T
1 T
9232320 GAAAAATGGT
Statistics
Matches: 95, Mismatches: 6, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
9 69 0.73
10 11 0.12
11 9 0.09
12 6 0.06
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
TAATAATATT
Found at i:9232239 original size:3 final size:3
Alignment explanation
Indices: 9232233--9232316 Score: 152
Period size: 3 Copynumber: 28.0 Consensus size: 3
9232223 TTTTATTTAT
9232233 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
9232281 ATA ATA ATA ATA ATA ATA ATA AT- ATA ATA ATTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA
9232317 TTTGAAAAAT
Statistics
Matches: 79, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.03
3 74 0.94
4 3 0.04
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:9232728 original size:3 final size:3
Alignment explanation
Indices: 9232722--9232754 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
9232712 TTATTTGTTG
9232722 TAA TAA TAA TAA TAA T-A TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
9232755 TGAAAAATGG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:9232743 original size:14 final size:14
Alignment explanation
Indices: 9232724--9232752 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
9232714 ATTTGTTGTA
9232724 ATAATAATAATAAT
1 ATAATAATAATAAT
9232738 ATAATAATAATAAT
1 ATAATAATAATAAT
9232752 A
1 A
9232753 ATTGAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
ATAATAATAATAAT
Found at i:9232744 original size:17 final size:17
Alignment explanation
Indices: 9232722--9232754 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
9232712 TTATTTGTTG
9232722 TAATAATAATAATAATA
1 TAATAATAATAATAATA
9232739 TAATAATAATAATAAT
1 TAATAATAATAATAAT
9232755 TGAAAAATGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
TAATAATAATAATAATA
Found at i:9244074 original size:21 final size:20
Alignment explanation
Indices: 9244025--9244074 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
9244015 TAATATTATT
*
9244025 TAATA-TATCAAATACAATC
1 TAATATTATAAAATACAATC
* *
9244044 TAAAATTATAAAATATAATC
1 TAATATTATAAAATACAATC
9244064 ATAATATTATA
1 -TAATATTATA
9244075 TTTTAAAGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 4 0.16
20 12 0.48
21 9 0.36
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (20 bp):
TAATATTATAAAATACAATC
Found at i:9245986 original size:20 final size:19
Alignment explanation
Indices: 9245945--9245984 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
9245935 TATATAAAAC
9245945 TTAAACAAAAATAATCAAT
1 TTAAACAAAAATAATCAAT
*
9245964 TTAAACAAAAATGATCAAT
1 TTAAACAAAAATAATCAAT
9245983 TT
1 TT
9245985 TATTTTAACC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.57, C:0.10, G:0.03, T:0.30
Consensus pattern (19 bp):
TTAAACAAAAATAATCAAT
Found at i:9247203 original size:29 final size:29
Alignment explanation
Indices: 9247137--9247333 Score: 128
Period size: 30 Copynumber: 6.7 Consensus size: 29
9247127 GCAAACACAT
* *
9247137 AAACTAAAAGGACCAAAATAGTACAAATAG
1 AAACTTAAAGGACTAAAATAGTA-AAATAG
* *
9247167 AAATTTAAAGGACTAAAATGGTAAAATAG
1 AAACTTAAAGGACTAAAATAGTAAAATAG
* *
9247196 AAACTTAAATGG-CTAAAATAGTAAAAACAC
1 AAACTTAAA-GGACTAAAATAGT-AAAATAG
* * ** * *
9247226 AAACTTAAGGGTCT-ATTTAGCAAATAAAG
1 AAACTTAAAGGACTAAAATAGTAAA-ATAG
* * * **
9247255 ATATTTGAAGGACTAAAATAACAAAAATAG
1 AAACTTAAAGGACTAAAAT-AGTAAAATAG
* *
9247285 AAATTTAAAGGACTAAAATAGCTAAAATAA
1 AAACTTAAAGGACTAAAATAG-TAAAATAG
* **
9247315 AAAGTTAAATAACTAAAAT
1 AAACTTAAAGGACTAAAAT
9247334 GAAATAAACA
Statistics
Matches: 128, Mismatches: 32, Indels: 14
0.74 0.18 0.08
Matches are distributed among these distances:
28 3 0.02
29 41 0.32
30 80 0.62
31 4 0.03
ACGTcount: A:0.56, C:0.09, G:0.13, T:0.22
Consensus pattern (29 bp):
AAACTTAAAGGACTAAAATAGTAAAATAG
Found at i:9248845 original size:3 final size:3
Alignment explanation
Indices: 9248837--9248877 Score: 66
Period size: 3 Copynumber: 13.7 Consensus size: 3
9248827 AATATAACAT
9248837 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAAA TAA T-A TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TA
9248878 TATTTTTTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.06
3 31 0.86
4 3 0.08
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:9249279 original size:133 final size:132
Alignment explanation
Indices: 9249087--9249525 Score: 571
Period size: 133 Copynumber: 3.3 Consensus size: 132
9249077 AGGGTAACAC
* *
9249087 GACTCCCACATGATGAGGAGATCTGGTCGGGGGATGACACGACTCATACATGATGAAGAGTTCTG
1 GACTCCTACGTGATGAGGAGATCTGGTCGGGGGATGACACGACTCATACATGATGAAGAGTTCTG
* * ** * *
9249152 GCCATCTTTGGGAAGGGTGATAACACGGTTCCTACACGATGAGGACGACTGGTTATCTA-GGGTT
66 GCCATCTTTAGGAAGGGTGATAACTCGGTTCCTACGTGATGAGGACGGCTGGTTATC-AGGGGTG
9249216 AAA
130 AAA
* * * * *
9249219 GAGCTCATACGCGATGAGGAGATCTGGTCAGGGGATGACACGACTCAAACCTGATGAAGAGTTCT
1 GA-CTCCTACGTGATGAGGAGATCTGGTCGGGGGATGACACGACTCATACATGATGAAGAGTTCT
* *
9249284 GGCTATTTTTAGGAAGGGTGATAACTCGGTTCCTACGTGATGAGGACGGCTGGTTATCAGGGGTG
65 GGCCATCTTTAGGAAGGGTGATAACTCGGTTCCTACGTGATGAGGACGGCTGGTTATCAGGGGTG
*
9249349 ACAC
130 A-AA
* * *
9249353 GACTCCTACGTGAT-ATGGAGGTCTGGTCGGGGGATGACACAACTCATACATGACGAAGAGTTCT
1 GACTCCTACGTGATGA-GGAGATCTGGTCGGGGGATGACACGACTCATACATGATGAAGAGTTCT
* * * **
9249417 AGCCTTCTTTAGGAAGAGTGATAACTCGGTTCCTACGTGAAAAGGACGGCTGGTTATCAGGGGTG
65 GGCCATCTTTAGGAAGGGTGATAACTCGGTTCCTACGTGATGAGGACGGCTGGTTATCAGGGGTG
9249482 ACACA
130 A-A-A
*
9249487 -ACTCCTACGTGATGAGGAGGTCTGGTC-GGGGATGACACG
1 GACTCCTACGTGATGAGGAGATCTGGTCGGGGGATGACACG
9249526 GTTCCTACGC
Statistics
Matches: 268, Mismatches: 33, Indels: 12
0.86 0.11 0.04
Matches are distributed among these distances:
132 15 0.06
133 249 0.93
134 4 0.01
ACGTcount: A:0.26, C:0.19, G:0.32, T:0.23
Consensus pattern (132 bp):
GACTCCTACGTGATGAGGAGATCTGGTCGGGGGATGACACGACTCATACATGATGAAGAGTTCTG
GCCATCTTTAGGAAGGGTGATAACTCGGTTCCTACGTGATGAGGACGGCTGGTTATCAGGGGTGA
AA
Found at i:9249512 original size:42 final size:42
Alignment explanation
Indices: 9249447--9249594 Score: 144
Period size: 39 Copynumber: 3.6 Consensus size: 42
9249437 ATAACTCGGT
* **
9249447 TCCTACGTGAAAAGGACGG-CTGGTTATCAGGGGTGACACAAC
1 TCCTACGTGATAAGGA-GGTCTGGTTATCAGGGGTGACACGGC
* *
9249489 TCCTACGTGATGAGGAGGTCTGG---TC-GGGGATGACACGGT
1 TCCTACGTGATAAGGAGGTCTGGTTATCAGGGG-TGACACGGC
* * * * *
9249528 TCCTACGCGATGATGACGACTGGTTATCTAGGGGTGACACGGC
1 TCCTACGTGATAAGGAGGTCTGGTTATC-AGGGGTGACACGGC
9249571 TCCTACGTGATAAGGAGGTCTGGT
1 TCCTACGTGATAAGGAGGTCTGGT
9249595 CGAGGGATGA
Statistics
Matches: 84, Mismatches: 15, Indels: 13
0.75 0.13 0.12
Matches are distributed among these distances:
38 4 0.05
39 27 0.32
41 2 0.02
42 20 0.24
43 27 0.32
44 4 0.05
ACGTcount: A:0.22, C:0.20, G:0.34, T:0.23
Consensus pattern (42 bp):
TCCTACGTGATAAGGAGGTCTGGTTATCAGGGGTGACACGGC
Found at i:9249534 original size:39 final size:39
Alignment explanation
Indices: 9249488--9249633 Score: 132
Period size: 40 Copynumber: 3.6 Consensus size: 39
9249478 GGTGACACAA
9249488 CTCCTACGTGATGAGGAGGTCTGGTCGGGGATGACACGG
1 CTCCTACGTGATGAGGAGGTCTGGTCGGGGATGACACGG
* * * * *
9249527 TTCCTACGCGATGATGACGACTGGTTATCTAGGGG-TGACACGG
1 CTCCTACGTGATGAGGAGGTCTGG---TC--GGGGATGACACGG
* *
9249570 CTCCTACGTGATAAGGAGGTCTGGTCGAGGGATGACACGA
1 CTCCTACGTGATGAGGAGGTCTGGTCG-GGGATGACACGG
* * * *
9249610 CTCATACATGATGAAGAGTTCTGG
1 CTCCTACGTGATGAGGAGGTCTGG
9249634 CCATCTTTTG
Statistics
Matches: 83, Mismatches: 17, Indels: 13
0.73 0.15 0.12
Matches are distributed among these distances:
38 1 0.01
39 22 0.27
40 28 0.34
42 2 0.02
43 26 0.31
44 4 0.05
ACGTcount: A:0.23, C:0.20, G:0.34, T:0.23
Consensus pattern (39 bp):
CTCCTACGTGATGAGGAGGTCTGGTCGGGGATGACACGG
Found at i:9249579 original size:82 final size:82
Alignment explanation
Indices: 9249443--9249608 Score: 244
Period size: 82 Copynumber: 2.0 Consensus size: 82
9249433 AGTGATAACT
* * *
9249443 CGGTTCCTACGTGAAAAGGACGGCTGGTTATCAGGGGTGACACAACTCCTACGTGATGAGGAGGT
1 CGGTTCCTACGCGAAAAGGACGACTGGTTATCAGGGGTGACACAACTCCTACGTGATAAGGAGGT
9249508 CTGGTCG-GGGATGACA
66 CTGGTCGAGGGATGACA
** * **
9249524 CGGTTCCTACGCGATGATGACGACTGGTTATCTAGGGGTGACACGGCTCCTACGTGATAAGGAGG
1 CGGTTCCTACGCGAAAAGGACGACTGGTTATC-AGGGGTGACACAACTCCTACGTGATAAGGAGG
9249589 TCTGGTCGAGGGATGACA
65 TCTGGTCGAGGGATGACA
9249607 CG
1 CG
9249609 ACTCATACAT
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
81 27 0.36
82 37 0.49
83 11 0.15
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (82 bp):
CGGTTCCTACGCGAAAAGGACGACTGGTTATCAGGGGTGACACAACTCCTACGTGATAAGGAGGT
CTGGTCGAGGGATGACA
Found at i:9249900 original size:64 final size:65
Alignment explanation
Indices: 9249735--9250011 Score: 297
Period size: 65 Copynumber: 4.3 Consensus size: 65
9249725 CGCCTCTAGG
* * * *
9249735 GAGAC-AAACTTTGTTTCAATGGAAACGATATCAAAGGTTGGTTTT-AAGAGAAACTGTCTCAAG
1 GAGACAAAACTTTGTTTCAATGGAAACGATCTCAAAGATT-TTTTTCAAAAGAAACTGTCTCAAG
9249798 A
65 A
9249799 GAGACAAAACTTTGTTTTC-ATAGGAAACAGA-CTCAAAGATTTTTATTCAAAAGAAACTGTCTC
1 GAGACAAAACTTTG-TTTCAAT-GGAAAC-GATCTCAAAGATTTTT-TTCAAAAGAAACTGTCTC
9249862 -A-A
62 AAGA
* * *
9249864 GAGACAAAATTTTGTTTCAATGGAAACGATCTCAAAGGTTTTTTTCTCAAAAGAAATTGTCTCAA
1 GAGACAAAACTTTGTTTCAATGGAAACGATCTCAAA-GATTTTTT-TCAAAAGAAACTGTCTCAA
9249929 GA
64 GA
* * * * *
9249931 GAGACAAAACTTTGTTTCCAA-AGAAACAAACTCAAAGA-TTTTTTCAAAATAAATTGTCTC--G
1 GAGACAAAACTTTGTTT-CAATGGAAACGATCTCAAAGATTTTTTTCAAAAGAAACTGTCTCAAG
9249992 A
65 A
9249993 GAGACAAAA-TTTGTTTCAA
1 GAGACAAAACTTTGTTTCAA
9250012 GAGACACAAC
Statistics
Matches: 187, Mismatches: 13, Indels: 30
0.81 0.06 0.13
Matches are distributed among these distances:
60 3 0.02
61 7 0.04
62 11 0.06
63 2 0.01
64 38 0.20
65 55 0.29
66 23 0.12
67 45 0.24
68 3 0.02
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (65 bp):
GAGACAAAACTTTGTTTCAATGGAAACGATCTCAAAGATTTTTTTCAAAAGAAACTGTCTCAAGA
Found at i:9250136 original size:32 final size:32
Alignment explanation
Indices: 9250100--9250166 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 32
9250090 ACATTAGGAC
* *
9250100 GTTGAATCCCCAAAGATGCCCCAACATTTGAT
1 GTTGAATCCACAAAGATGCCCCAACATTCGAT
* **
9250132 GTTGAATCTACAAAGATGCCCTTACATTCGAT
1 GTTGAATCCACAAAGATGCCCCAACATTCGAT
9250164 GTT
1 GTT
9250167 TCTTGCTTCA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (32 bp):
GTTGAATCCACAAAGATGCCCCAACATTCGAT
Found at i:9251170 original size:6 final size:6
Alignment explanation
Indices: 9251148--9251297 Score: 83
Period size: 6 Copynumber: 24.2 Consensus size: 6
9251138 GTTTCTTGTC
** * *
9251148 TTCTTT TTC-TT CGCTTT TTCTTT TGT-TGT TT-TTT TTCTTT GCTTTTTT
1 TTCTTT TTCTTT TTCTTT TTCTTT T-TCTTT TTCTTT TTCTTT --TTCTTT
* * * * *
9251196 TTCTTT ACTCTTT TTCTTC TTCTTT TT-TTT CTCTTT GTTTTTT TTTTCTT
1 TTCTTT -TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT -TTCTTT TTCT-TT
* * *
9251246 TTCTCT TTCTTT TCTCCTT TTCTTTT TTATTT TTCTTT TTCTCTT TTCTTT
1 TTCTTT TTCTTT T-TCTTT TTC-TTT TTCTTT TTCTTT TTCT-TT TTCTTT
9251297 T
1 T
9251298 ATTTGATCTT
Statistics
Matches: 110, Mismatches: 22, Indels: 24
0.71 0.14 0.15
Matches are distributed among these distances:
5 12 0.11
6 63 0.57
7 30 0.27
8 5 0.05
ACGTcount: A:0.01, C:0.18, G:0.03, T:0.77
Consensus pattern (6 bp):
TTCTTT
Found at i:9251185 original size:42 final size:43
Alignment explanation
Indices: 9251139--9251245 Score: 112
Period size: 44 Copynumber: 2.5 Consensus size: 43
9251129 TTTGCATGTG
* *
9251139 TTTCTTGTCTTCTTTTTCTT-CGCTTTTTCTT-TTGTTGTTTTT
1 TTTCTTGTCTTTTTTTTCTTACGCTTTTTCTTCTTCTT-TTTTT
*
9251181 TTTCTT-TGCTTTTTTTTCTTTACTCTTTTTCTTCTTCTTTTTTT
1 TTTCTTGT-CTTTTTTTTC-TTACGCTTTTTCTTCTTCTTTTTTT
* *
9251225 TCTCTTTGTTTTTTTTTTCTT
1 TTTC-TTGTCTTTTTTTTCTT
9251246 TTCTCTTTCT
Statistics
Matches: 54, Mismatches: 5, Indels: 10
0.78 0.07 0.14
Matches are distributed among these distances:
41 1 0.02
42 15 0.28
43 2 0.04
44 20 0.37
45 15 0.28
46 1 0.02
ACGTcount: A:0.01, C:0.17, G:0.06, T:0.77
Consensus pattern (43 bp):
TTTCTTGTCTTTTTTTTCTTACGCTTTTTCTTCTTCTTTTTTT
Found at i:9251191 original size:28 final size:27
Alignment explanation
Indices: 9251151--9251258 Score: 85
Period size: 28 Copynumber: 3.8 Consensus size: 27
9251141 TCTTGTCTTC
*
9251151 TTTTTCTTCGCTTTTTCTTTTGTTGTTT
1 TTTTTCTTTGCTTTTTCTTTTGTT-TTT
9251179 TTTTTCTTTGCTTTTT-TTTCT-TTACTCTT
1 TTTTTCTTTGCTTTTTCTTT-TGTT--T-TT
**
9251208 TTTCTTCTTCTTTTTTTTCTCTTTGTTTTT
1 TTT-TTCTT-TGCTTTTTCT-TTTGTTTTT
* *
9251238 TTTTTCTTTTCTCTTTCTTTT
1 TTTTTCTTTGCTTTTTCTTTT
9251259 CTCCTTTTCT
Statistics
Matches: 66, Mismatches: 6, Indels: 17
0.74 0.07 0.19
Matches are distributed among these distances:
27 8 0.12
28 25 0.38
29 10 0.15
30 10 0.15
31 7 0.11
32 2 0.03
33 4 0.06
ACGTcount: A:0.01, C:0.17, G:0.05, T:0.78
Consensus pattern (27 bp):
TTTTTCTTTGCTTTTTCTTTTGTTTTT
Found at i:9251193 original size:13 final size:13
Alignment explanation
Indices: 9251151--9251297 Score: 63
Period size: 13 Copynumber: 11.2 Consensus size: 13
9251141 TCTTGTCTTC
*
9251151 TTTTTCTTCGCTT
1 TTTTTCTTTGCTT
* *
9251164 TTTCTTTTGTTGTTT
1 TTT-TTCT-TTGCTT
9251179 TTTTTCTTTGCTTT
1 TTTTTCTTTGC-TT
* *
9251193 TTTTTCTTTACTC
1 TTTTTCTTTGCTT
*
9251206 TTTTTCTTCTTCTTTT
1 TTTTTCTT-TGC--TT
9251222 TTTTCTCTTTG-TT
1 TTTT-TCTTTGCTT
9251235 TTTTT-TTT-C-T
1 TTTTTCTTTGCTT
*
9251245 TTTCTCTTT-CTT
1 TTTTTCTTTGCTT
* * *
9251257 TTCTCCTTTTCTT
1 TTTTTCTTTGCTT
*
9251270 TTTTAT-TTTTCTT
1 TTTT-TCTTTGCTT
* *
9251283 TTTCTCTTTTCTT
1 TTTTTCTTTGCTT
9251296 TT
1 TT
9251298 ATTTGATCTT
Statistics
Matches: 104, Mismatches: 17, Indels: 26
0.71 0.12 0.18
Matches are distributed among these distances:
10 5 0.05
11 7 0.07
12 9 0.09
13 46 0.44
14 20 0.19
15 7 0.07
16 6 0.06
17 4 0.04
ACGTcount: A:0.01, C:0.18, G:0.03, T:0.78
Consensus pattern (13 bp):
TTTTTCTTTGCTT
Found at i:9251209 original size:26 final size:26
Alignment explanation
Indices: 9251180--9251297 Score: 114
Period size: 27 Copynumber: 4.3 Consensus size: 26
9251170 TTGTTGTTTT
* *
9251180 TTTTCTTTGCTTTTTTTTCTTTACTC
1 TTTTCTTTTCTTTTTTTTCTTTTCTC
*
9251206 TTTTTCTTCTTCTTTTTTTTCTCTTTGT-
1 -TTTTCTT-TTCTTTTTTTTCT-TTTCTC
*
9251234 TTTTTTTTTCTTTTCTCTTTCTTTTCTCC
1 TTTTCTTTTCTTTT-T-TTTCTTTTCT-C
*
9251263 TTTTCTTTT-TTATTTTTCTTTTTCTC
1 TTTTCTTTTCTTTTTTTTC-TTTTCTC
9251289 TTTTCTTTT
1 TTTTCTTTT
9251298 ATTTGATCTT
Statistics
Matches: 77, Mismatches: 7, Indels: 15
0.78 0.07 0.15
Matches are distributed among these distances:
26 21 0.27
27 25 0.32
28 20 0.26
29 11 0.14
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.78
Consensus pattern (26 bp):
TTTTCTTTTCTTTTTTTTCTTTTCTC
Found at i:9251224 original size:44 final size:45
Alignment explanation
Indices: 9251139--9251285 Score: 144
Period size: 45 Copynumber: 3.3 Consensus size: 45
9251129 TTTGCATGTG
* * *
9251139 TTTC-TTGTCTTCTTTTTC-TT-CGCTTTTTCTT-TTGTTGTTTTT
1 TTTCTTTGTCTTTTTTTTCTTTACTCTTTTTCTTCTTCTT-TTTTT
9251181 TTTCTTTG-CTTTTTTTTCTTTACTCTTTTTCTTCTTCTTTTTTT
1 TTTCTTTGTCTTTTTTTTCTTTACTCTTTTTCTTCTTCTTTTTTT
* * * *
9251225 TCTCTTTGTTTTTTTTTTCTTTTCTCTTTCTT-TTCTCCTTTTCTTT
1 TTTCTTTGTCTTTTTTTTCTTTACTCTTT-TTCTTCTTCTTTT-TTT
* *
9251271 TTTATTTTTCTTTTT
1 TTTCTTTGTCTTTTT
9251286 CTCTTTTCTT
Statistics
Matches: 87, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
42 13 0.15
43 5 0.06
44 22 0.25
45 31 0.36
46 16 0.18
ACGTcount: A:0.01, C:0.18, G:0.04, T:0.77
Consensus pattern (45 bp):
TTTCTTTGTCTTTTTTTTCTTTACTCTTTTTCTTCTTCTTTTTTT
Found at i:9251272 original size:32 final size:32
Alignment explanation
Indices: 9251206--9251284 Score: 92
Period size: 32 Copynumber: 2.5 Consensus size: 32
9251196 TTCTTTACTC
* *
9251206 TTTTTCTTCTTCTTTT-TTTTCTCTTTGTTTTT
1 TTTTTCTT-TTCTTTTCTTTTCTCCTTGTTCTT
9251238 TTTTTCTTTTCTCTTTCTTTTCTCCTT-TTCTT
1 TTTTTCTTTTCT-TTTCTTTTCTCCTTGTTCTT
9251270 TTTTAT-TTTTCTTTT
1 TTTT-TCTTTTCTTTT
9251285 TCTCTTTTCT
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
31 7 0.17
32 25 0.60
33 10 0.24
ACGTcount: A:0.01, C:0.18, G:0.01, T:0.80
Consensus pattern (32 bp):
TTTTTCTTTTCTTTTCTTTTCTCCTTGTTCTT
Found at i:9251906 original size:20 final size:20
Alignment explanation
Indices: 9251883--9251923 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
9251873 GGATAAATGC
9251883 AATGTTTCAAGGTCTCAAAG
1 AATGTTTCAAGGTCTCAAAG
*
9251903 AATGTTTCAAGGTCTTAAAG
1 AATGTTTCAAGGTCTCAAAG
9251923 A
1 A
9251924 GAGGGAATGT
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:0.12, G:0.20, T:0.32
Consensus pattern (20 bp):
AATGTTTCAAGGTCTCAAAG
Found at i:9253136 original size:211 final size:211
Alignment explanation
Indices: 9252749--9253139 Score: 484
Period size: 211 Copynumber: 1.9 Consensus size: 211
9252739 TTTGTCGTCC
* * * *
9252749 TTGAAAATGATGCCCTTCAAGTATTTTGTAACCTAACTCCGTTAATGCCCCGGCGGTGCTGAAGT
1 TTGAAAATGATGCCCTTCAAGCATTCTGTAACCTAACTCCGTTAATGCCCCGACGGTGCTGAAGC
** * * *
9252814 CATTGCATCACTCCTTGATGGTTAGCGATGGAACGATCTTATATAAGAATCTACTGTTGGATTAC
66 CATTGCATCACTCCTTGATGACTAGCGATGGAACGATCTTAGATAAGAATCCACTGCTGGATTAC
* * * * *
9252879 TCCTCGGATCAATGGATCGTAATTTTAGTCTCGAATGTTACACGATCTTCAAGCTCACTGCTTCG
131 TCCTCGAATCAATGGATCATAATTTCAATCTCGAATGATACACGATCTTCAAGCTCACTGCTTCG
9252944 TCTCGGATCTTTGTAT
196 TCTCGGATCTTTGTAT
* * *
9252960 TTGAAACTGATG-CCTCTCAAGCATTCTGTAA-CTGAACTCGGTTAATGCCCCTACGGTGCTGAA
1 TTGAAAATGATGCCCT-TCAAGCATTCTGTAACCT-AACTCCGTTAATGCCCCGACGGTGCTGAA
* * * * * *
9253023 GCCATTGCGTCGCTTCTTGATGACTAGTGAT-GACATGAT-TATAGATAAGACTCCACTGCTGGA
64 GCCATTGCATCACTCCTTGATGACTAGCGATGGA-ACGATCT-TAGATAAGAATCCACTGCTGGA
* * *
9253086 TTACTCCTCGAATCAGTGGATCATCATTTCAATCTCGAATGATGCACGATCTTC
127 TTACTCCTCGAATCAATGGATCATAATTTCAATCTCGAATGATACACGATCTTC
9253140 GAGCAATTCT
Statistics
Matches: 150, Mismatches: 26, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
210 8 0.05
211 142 0.95
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (211 bp):
TTGAAAATGATGCCCTTCAAGCATTCTGTAACCTAACTCCGTTAATGCCCCGACGGTGCTGAAGC
CATTGCATCACTCCTTGATGACTAGCGATGGAACGATCTTAGATAAGAATCCACTGCTGGATTAC
TCCTCGAATCAATGGATCATAATTTCAATCTCGAATGATACACGATCTTCAAGCTCACTGCTTCG
TCTCGGATCTTTGTAT
Found at i:9255050 original size:15 final size:15
Alignment explanation
Indices: 9255032--9255071 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
9255022 AAAGAAATGC
9255032 AATGGAAATAAATCA
1 AATGGAAATAAATCA
9255047 AATGGAAATAAATCA
1 AATGGAAATAAATCA
*
9255062 AATAGAAATA
1 AATGGAAATA
9255072 CACAAAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.62, C:0.05, G:0.12, T:0.20
Consensus pattern (15 bp):
AATGGAAATAAATCA
Found at i:9255270 original size:30 final size:30
Alignment explanation
Indices: 9255238--9255420 Score: 138
Period size: 30 Copynumber: 6.2 Consensus size: 30
9255228 ATTACAGACC
* *
9255238 AAAATAGCAAACACATAAACTTAAAGGACC
1 AAAATAGCAAAAACATAAACTTAAAGGACT
* * * * * *
9255268 AAAATAGTACAAATAAAAATTTAATGGACT
1 AAAATAGCAAAAACATAAACTTAAAGGACT
* * *
9255298 AAAATGGCAAAAATAAAAACTTAAATGG-CT
1 AAAATAGCAAAAACATAAACTTAAA-GGACT
** * * *
9255328 AAAATAATAAAAACACAAACTTAAGGGTCT
1 AAAATAGCAAAAACATAAACTTAAAGGACT
* * *
9255358 -AAATAGC-AATACATACATTTAAAGGACT
1 AAAATAGCAAAAACATAAACTTAAAGGACT
* * *
9255386 AAAATAGCTAAAACATAAAGTTAAAGAACT
1 AAAATAGCAAAAACATAAACTTAAAGGACT
9255416 AAAAT
1 AAAAT
9255421 GAAATAAAAA
Statistics
Matches: 118, Mismatches: 31, Indels: 8
0.75 0.20 0.05
Matches are distributed among these distances:
28 15 0.13
29 14 0.12
30 87 0.74
31 2 0.02
ACGTcount: A:0.57, C:0.12, G:0.10, T:0.21
Consensus pattern (30 bp):
AAAATAGCAAAAACATAAACTTAAAGGACT
Found at i:9256984 original size:45 final size:45
Alignment explanation
Indices: 9256929--9257173 Score: 348
Period size: 45 Copynumber: 5.5 Consensus size: 45
9256919 GAATACCATG
* *
9256929 AGTGGCACCTTTTATGTCGATAATGCACTGTTATGCATTTTCATT
1 AGTGGCACCTTTTATGCCGATAATGCACCGTTATGCATTTTCATT
*
9256974 AGTGGAACCTTTTATGCCGATAATGCACCGTTATGCATTTTCATT
1 AGTGGCACCTTTTATGCCGATAATGCACCGTTATGCATTTTCATT
* * * * *
9257019 AGTAGCACCTTTTATGCCAATAATGCACCATTATACATTTCCATT
1 AGTGGCACCTTTTATGCCGATAATGCACCGTTATGCATTTTCATT
* *
9257064 ATTGGCA-CTTTTATGCCGATAATGCACTGTTATGCATTTTCATT
1 AGTGGCACCTTTTATGCCGATAATGCACCGTTATGCATTTTCATT
* * * * *
9257108 TGTGGAACATTTTATGCCGATAATGCACCATTATTCATTTTCATT
1 AGTGGCACCTTTTATGCCGATAATGCACCGTTATGCATTTTCATT
9257153 AGTGGCACCTTTTATGCCGAT
1 AGTGGCACCTTTTATGCCGAT
9257174 TCATAGATTT
Statistics
Matches: 173, Mismatches: 26, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
44 36 0.21
45 137 0.79
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.40
Consensus pattern (45 bp):
AGTGGCACCTTTTATGCCGATAATGCACCGTTATGCATTTTCATT
Found at i:9257102 original size:89 final size:90
Alignment explanation
Indices: 9256933--9257173 Score: 349
Period size: 89 Copynumber: 2.7 Consensus size: 90
9256923 ACCATGAGTG
* ** * *
9256933 GCACCTTTTATGTCGATAATGCACTGTTATGCATTTTCATTAGTGGAACCTTTTATGCCGATAAT
1 GCACCTTTTATGCCGATAATGCACCATTATACATTTTCATTAGTGGCACCTTTTATGCCGATAAT
9256998 GCACCGTTATGCATTTTCATTAGTA
66 GCACCGTTATGCATTTTCATTAGTA
* * *
9257023 GCACCTTTTATGCCAATAATGCACCATTATACATTTCCATTATTGGCA-CTTTTATGCCGATAAT
1 GCACCTTTTATGCCGATAATGCACCATTATACATTTTCATTAGTGGCACCTTTTATGCCGATAAT
* * *
9257087 GCACTGTTATGCATTTTCATTTGTG
66 GCACCGTTATGCATTTTCATTAGTA
* * *
9257112 GAACATTTTATGCCGATAATGCACCATTATTCATTTTCATTAGTGGCACCTTTTATGCCGAT
1 GCACCTTTTATGCCGATAATGCACCATTATACATTTTCATTAGTGGCACCTTTTATGCCGAT
9257174 TCATAGATTT
Statistics
Matches: 133, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
89 80 0.60
90 53 0.40
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.40
Consensus pattern (90 bp):
GCACCTTTTATGCCGATAATGCACCATTATACATTTTCATTAGTGGCACCTTTTATGCCGATAAT
GCACCGTTATGCATTTTCATTAGTA
Found at i:9260966 original size:2 final size:2
Alignment explanation
Indices: 9260959--9260993 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
9260949 GCTATGTATG
* *
9260959 TA TA TA TA TG TA TG TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9260994 TTCTGACATC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9260970 original size:14 final size:14
Alignment explanation
Indices: 9260951--9260993 Score: 68
Period size: 14 Copynumber: 3.1 Consensus size: 14
9260941 CCAGAAAAGC
9260951 TATGTATGTATATA
1 TATGTATGTATATA
9260965 TATGTATGTATATA
1 TATGTATGTATATA
* *
9260979 TATATATATATATA
1 TATGTATGTATATA
9260993 T
1 T
9260994 TTCTGACATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (14 bp):
TATGTATGTATATA
Found at i:9260974 original size:18 final size:18
Alignment explanation
Indices: 9260951--9260985 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
9260941 CCAGAAAAGC
*
9260951 TATGTATGTATATATATG
1 TATGTATATATATATATG
9260969 TATGTATATATATATAT
1 TATGTATATATATATAT
9260986 ATATATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.51
Consensus pattern (18 bp):
TATGTATATATATATATG
Found at i:9263686 original size:23 final size:23
Alignment explanation
Indices: 9263640--9263777 Score: 138
Period size: 23 Copynumber: 6.1 Consensus size: 23
9263630 CACTGACGTG
* * *
9263640 CCACATAG-AATGTCTCGGATGA
1 CCACATAGAAATGTCCCGAAGGA
* **
9263662 CCACAAAGGTATGTCCCGAAGGA
1 CCACATAGAAATGTCCCGAAGGA
*
9263685 CCACGTAGAAATGTCCCGAAGGA
1 CCACATAGAAATGTCCCGAAGGA
*
9263708 CCACATAGAAATGTCCCAAAGGA
1 CCACATAGAAATGTCCCGAAGGA
* *
9263731 CCACATAG--ATGTCTCGAAGAA
1 CCACATAGAAATGTCCCGAAGGA
* **
9263752 CCACATAGAAATCTCCTTAAGGA
1 CCACATAGAAATGTCCCGAAGGA
9263775 CCA
1 CCA
9263778 TATATATATT
Statistics
Matches: 94, Mismatches: 19, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
21 18 0.19
22 7 0.07
23 69 0.73
ACGTcount: A:0.37, C:0.26, G:0.20, T:0.17
Consensus pattern (23 bp):
CCACATAGAAATGTCCCGAAGGA
Found at i:9263797 original size:21 final size:19
Alignment explanation
Indices: 9263773--9263835 Score: 56
Period size: 21 Copynumber: 3.1 Consensus size: 19
9263763 TCTCCTTAAG
9263773 GACCATATATATATTCCAAA
1 GACCA-ATATATATTCCAAA
9263793 TGACCAA-ATATATGTCTCAAA
1 -GACCAATATATAT-TC-CAAA
*
9263814 GAACCACATATATGTTCCAAA
1 G-ACCA-ATATATATTCCAAA
9263835 G
1 G
9263836 GATTACATAT
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
19 6 0.17
20 4 0.11
21 18 0.50
22 3 0.08
23 5 0.14
ACGTcount: A:0.43, C:0.21, G:0.10, T:0.27
Consensus pattern (19 bp):
GACCAATATATATTCCAAA
Found at i:9263843 original size:21 final size:21
Alignment explanation
Indices: 9263819--9263858 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
9263809 TCAAAGAACC
9263819 ACATATATGTTCC-AAAGGATT
1 ACATATATG-TCCTAAAGGATT
9263840 ACATATATGTCCTAAAGGA
1 ACATATATGTCCTAAAGGA
9263859 CCACGTAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (21 bp):
ACATATATGTCCTAAAGGATT
Found at i:9263862 original size:42 final size:42
Alignment explanation
Indices: 9263765--9263862 Score: 108
Period size: 42 Copynumber: 2.3 Consensus size: 42
9263755 CATAGAAATC
* * *
9263765 TCCTTAAGGACCATATATATATTCCAAATGACCAAATATATG
1 TCCTAAAGGACCACATATATATTCCAAAGGACCAAATATATG
* * ** *
9263807 T-CTCAAAGAACCACATATATGTTCCAAAGGATTACATATATG
1 TCCT-AAAGGACCACATATATATTCCAAAGGACCAAATATATG
9263849 TCCTAAAGGACCAC
1 TCCTAAAGGACCAC
9263863 GTAGAACCCT
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
41 2 0.04
42 41 0.91
43 2 0.04
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.28
Consensus pattern (42 bp):
TCCTAAAGGACCACATATATATTCCAAAGGACCAAATATATG
Found at i:9265156 original size:23 final size:24
Alignment explanation
Indices: 9265091--9265186 Score: 117
Period size: 23 Copynumber: 4.1 Consensus size: 24
9265081 CACGAAAGTG
*
9265091 CCACGTAGAATTTGACCC-AATGGA
1 CCACGTAGAATTTGTCCCGAA-GGA
* *
9265115 TCGCGTAGAATTTGTCCCGAAGGA
1 CCACGTAGAATTTGTCCCGAAGGA
9265139 CCACGTAGAA-TTGTCCCGAAGGA
1 CCACGTAGAATTTGTCCCGAAGGA
* *
9265162 CCACATAG-ATTTGTCCCAAAGGA
1 CCACGTAGAATTTGTCCCGAAGGA
9265185 CC
1 CC
9265187 GCGTGGAACA
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
22 1 0.02
23 34 0.54
24 26 0.41
25 2 0.03
ACGTcount: A:0.30, C:0.26, G:0.23, T:0.21
Consensus pattern (24 bp):
CCACGTAGAATTTGTCCCGAAGGA
Found at i:9265381 original size:15 final size:15
Alignment explanation
Indices: 9265363--9265395 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
9265353 ACATTTTAAC
*
9265363 ATAAAACATAATCTT
1 ATAAAACATAATCAT
9265378 ATAAAACATAATCAT
1 ATAAAACATAATCAT
9265393 ATA
1 ATA
9265396 CATATAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (15 bp):
ATAAAACATAATCAT
Found at i:9270026 original size:2 final size:2
Alignment explanation
Indices: 9270015--9270047 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
9270005 AATAAAATAA
9270015 AT AT -T 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
9270048 TCATAAACTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:9270568 original size:23 final size:23
Alignment explanation
Indices: 9270504--9270603 Score: 101
Period size: 23 Copynumber: 4.3 Consensus size: 23
9270494 GAAGTGCCAT
* *
9270504 GTAGAATTTGTCTCGAAGGACCGC
1 GTAGAA-TTGTCCCGAAGGACCAC
* *
9270528 TTAGAATTTGTCCCGAAGGTCCAC
1 GTAGAA-TTGTCCCGAAGGACCAC
*
9270552 GTAGAATTGTCCTGAAGGACCAC
1 GTAGAATTGTCCCGAAGGACCAC
* * * *
9270575 ATAGATTTATCCCAAAGGACCAC
1 GTAGAATTGTCCCGAAGGACCAC
9270598 GTAGAA
1 GTAGAA
9270604 CCCTTGACTC
Statistics
Matches: 62, Mismatches: 14, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
23 37 0.60
24 25 0.40
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (23 bp):
GTAGAATTGTCCCGAAGGACCAC
Found at i:9270863 original size:22 final size:21
Alignment explanation
Indices: 9270838--9270878 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
9270828 AAAAATATAC
*
9270838 ATTATATAAAACATAATAAAAT
1 ATTACATAAAACA-AATAAAAT
*
9270860 ATTACATAAAATAAATAAA
1 ATTACATAAAACAAATAAA
9270879 CGATCTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (21 bp):
ATTACATAAAACAAATAAAAT
Found at i:9272748 original size:225 final size:223
Alignment explanation
Indices: 9272350--9273185 Score: 1077
Period size: 225 Copynumber: 3.7 Consensus size: 223
9272340 ATGTAAACGG
* * * * *
9272350 TAATATATTGATAATTTTGAAAACAAATAAAGTAATTAACCTATTTTGTTATCGTCGTATTTCTA
1 TAATATGTTGATAATATTGATAACAAATCAAGTAATTAACATATTTTGTTATCGTCGTATTTCTA
* * *
9272415 AGGCTCCATCAGCTTTAAACAGACGT-TACCTATTGCATTAAATAAGCGCTACTTGTTATGTTAT
66 AGGCCCCATCAGCTTTAAA-AG-CATCTACCTATTACATTAAATAAGCGCTACTTGTTATGTTAT
* * * * * *
9272479 TATGGTTGATAATATTTCCAATAACTAACTTATTTTTTATCGTCGGATTTTTAAGGCTCCATCAG
129 TATGGTTGATAATATTTCCAGTAATTAACCTATTTGTTATCGTCGGATTTCTAAGACTCCATCAG
9272544 CTTAAACTTTGGTAACATTTTAGGCGCTATC
194 CTTAAACTTTGGTAACATTTTAGGCGCTA-C
* *
9272575 TAATATGTTGATAATATTCATAACATATCAAGTAATTAACATATTTTGTTATCGTCAG-ATTTCT
1 TAATATGTTGATAATATTGATAACAAATCAAGTAATTAACATATTTTGTTATCGTC-GTATTTCT
* * *
9272639 AAGACCCCATCAGCTTTAAACATGCATC-ACCTATTACATTAAATAAGTGCTATTTGTTATGTTA
65 AAGGCCCCATCAGCTTTAAA-A-GCATCTACCTATTACATTAAATAAGCGCTACTTGTTATGTTA
* * *
9272703 TTATGGTTGATAATGTTTCTAGTAATTAACCTATTTGTTATCGTCGAATTTCTAAGACTCCATCA
128 TTATGGTTGATAATATTTCCAGTAATTAACCTATTTGTTATCGTCGGATTTCTAAGACTCCATCA
*
9272768 GCTTAAATTTTGGTAACATTTTAGGCGCTAC
193 GCTTAAACTTTGGTAACATTTTAGGCGCTAC
* * *
9272799 ATAATATGTTGATAATATTGATAACAAATCAATTAATTAACCAATTTTTTTGTTATCGTCGGATT
1 -TAATATGTTGATAATATTGATAACAAATCAAGTAATTAA-C-A-TATTTTGTTATCGTCGTATT
* * * * * * *
9272864 TCTAAGGTCCCATCATCTTTTAAAAGGCA-CTACCTATTACGTCACATAAGTGCTACTTGTTATA
62 TCTAAGGCCCCATCAGC-TTTAAAA-GCATCTACCTATTACATTAAATAAGCGCTACTTGTTATG
* * * *
9272928 TTATTATGGTTGATAATGTTTCCCGTAATTAACCTATTTTGTTATCGTTGGATTTCTAAGTCTCC
125 TTATTATGGTTGATAATATTTCCAGTAATTAACCTA-TTTGTTATCGTCGGATTTCTAAGACTCC
*
9272993 ATCAGCTTAAACTTTGGTAACATCTTAGGCGCTACC
189 ATCAGCTTAAACTTTGGTAACATTTTAGGCGCTA-C
* *
9273029 AAATATGTTGTTAATATTGATAACAAATCAAGTAATTAACATATTTTGTTATCGTCGTATTTCTA
1 TAATATGTTGATAATATTGATAACAAATCAAGTAATTAACATATTTTGTTATCGTCGTATTTCTA
* * * * * * *
9273094 AGGCCCCATCAGCTTTAAAAAGAAACTACCTATTACGTTACATAAGCACTACCTATTATGTTATT
66 AGGCCCCATCAGCTTT-AAAAGCATCTACCTATTACATTAAATAAGCGCTACTTGTTATGTTATT
*
9273159 ATGGTTGATAATATTTTCAGTAATTAA
130 ATGGTTGATAATATTTCCAGTAATTAA
9273186 TCAGTTATGT
Statistics
Matches: 537, Mismatches: 60, Indels: 27
0.86 0.10 0.04
Matches are distributed among these distances:
224 1 0.00
225 236 0.44
226 98 0.18
227 4 0.01
228 98 0.18
229 99 0.18
230 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.40
Consensus pattern (223 bp):
TAATATGTTGATAATATTGATAACAAATCAAGTAATTAACATATTTTGTTATCGTCGTATTTCTA
AGGCCCCATCAGCTTTAAAAGCATCTACCTATTACATTAAATAAGCGCTACTTGTTATGTTATTA
TGGTTGATAATATTTCCAGTAATTAACCTATTTGTTATCGTCGGATTTCTAAGACTCCATCAGCT
TAAACTTTGGTAACATTTTAGGCGCTAC
Done.