Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009611.1 Hibiscus syriacus cultivar Beakdansim tig00116997_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: 6671611
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 27
Found at i:861977 original size:21 final size:21
Alignment explanation
Indices: 861863--862021 Score: 86
Period size: 21 Copynumber: 7.7 Consensus size: 21
861853 AAATTTACTA
861863 TAGACTATCGCAACGACACTG
1 TAGACTATCGCAACGACACTG
861884 TATG-CTATCGCAACG-CGA--G
1 TA-GACTATCGCAACGAC-ACTG
* ** * *
861903 ATGGAAAATCGTAACAACACTG
1 -TAGACTATCGCAACGACACTG
*
861925 TAGACTATCGCAACG-CGAAATG
1 TAGACTATCGCAACGAC--ACTG
**
861947 --GAAAATCGCAACGACACTG
1 TAGACTATCGCAACGACACTG
*
861966 TAGACTATCGCAACG-CGAAATG
1 TAGACTATCGCAACGAC--ACTG
**
861988 --GAAAATCGCAACGACACTG
1 TAGACTATCGCAACGACACTG
862007 TAGACTATCGCAACG
1 TAGACTATCGCAACG
862022 CGATTTTCAA
Statistics
Matches: 99, Mismatches: 22, Indels: 34
0.64 0.14 0.22
Matches are distributed among these distances:
19 8 0.08
20 34 0.34
21 49 0.49
22 8 0.08
ACGTcount: A:0.37, C:0.25, G:0.21, T:0.17
Consensus pattern (21 bp):
TAGACTATCGCAACGACACTG
Found at i:868280 original size:60 final size:60
Alignment explanation
Indices: 868187--868302 Score: 178
Period size: 60 Copynumber: 1.9 Consensus size: 60
868177 ATATTATTGA
* * *
868187 GAATATTATATTAAATTTTTTGATTTATTTGACATGAAGATAAGATTACAGTGTTTAGAT
1 GAATATTATATTAAATTATTTGATTTATCTGACAGGAAGATAAGATTACAGTGTTTAGAT
** *
868247 GAATATTATATTATCTTATTTGGTTTATCTGACAGGAAGATAAGATTACAGTGTTT
1 GAATATTATATTAAATTATTTGATTTATCTGACAGGAAGATAAGATTACAGTGTTT
868303 GGATAAATGA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 50 1.00
ACGTcount: A:0.34, C:0.05, G:0.16, T:0.44
Consensus pattern (60 bp):
GAATATTATATTAAATTATTTGATTTATCTGACAGGAAGATAAGATTACAGTGTTTAGAT
Found at i:868508 original size:20 final size:21
Alignment explanation
Indices: 868470--868509 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
868460 TACATTTAAT
868470 TTTTAATAAAATTATTTCTATA
1 TTTTAATAAAA-TATTTCTATA
868492 TTTTAATAAAA-ATTTCTA
1 TTTTAATAAAATATTTCTA
868510 CATAAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
22 11 0.61
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (21 bp):
TTTTAATAAAATATTTCTATA
Found at i:868668 original size:17 final size:17
Alignment explanation
Indices: 868648--868696 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
868638 AAAAAGGAGT
868648 TGCAACTTAAAATGTGG
1 TGCAACTTAAAATGTGG
* * *
868665 TGCAATCATAAAATATGT
1 TGCAA-CTTAAAATGTGG
868683 TGCAACTTAAAATG
1 TGCAACTTAAAATG
868697 GCAATCATAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
17 12 0.46
18 14 0.54
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (17 bp):
TGCAACTTAAAATGTGG
Found at i:868704 original size:31 final size:34
Alignment explanation
Indices: 868646--868709 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 34
868636 ATAAAAAGGA
868646 GTTGCAACTTAAAATGTGGTGCAATCATAAAATAT
1 GTTGCAACTTAAAA-GTGGTGCAATCATAAAATAT
868681 GTTGCAACTTAAAA-T-G-GCAATCATAAAAT
1 GTTGCAACTTAAAAGTGGTGCAATCATAAAAT
868710 TAAAGGTAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
31 13 0.45
32 1 0.03
33 1 0.03
35 14 0.48
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (34 bp):
GTTGCAACTTAAAAGTGGTGCAATCATAAAATAT
Found at i:880005 original size:25 final size:25
Alignment explanation
Indices: 879977--880065 Score: 103
Period size: 25 Copynumber: 3.7 Consensus size: 25
879967 AACATAAAAA
*
879977 AAAAGGTGGCATAAAAAGACAGACG
1 AAAACGTGGCATAAAAAGACAGACG
* * *
880002 AAAACGTGCCATAAAAATATA-A--
1 AAAACGTGGCATAAAAAGACAGACG
*
880024 AAAAAGTGGCATAAAAAGACAGACG
1 AAAACGTGGCATAAAAAGACAGACG
*
880049 AAAACGTGTCATAAAAA
1 AAAACGTGGCATAAAAA
880066 CATACTTATT
Statistics
Matches: 51, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
22 17 0.33
23 1 0.02
24 1 0.02
25 32 0.63
ACGTcount: A:0.56, C:0.12, G:0.19, T:0.12
Consensus pattern (25 bp):
AAAACGTGGCATAAAAAGACAGACG
Found at i:880042 original size:47 final size:48
Alignment explanation
Indices: 879951--880065 Score: 187
Period size: 47 Copynumber: 2.4 Consensus size: 48
879941 GTCAAACGAC
*
879951 CGAAAACGTGCCAAAAAACATAAAAAAAAAGGTGGCATAAAAAGACAGA
1 CGAAAACGTGCCATAAAA-ATAAAAAAAAAGGTGGCATAAAAAGACAGA
*
880000 CGAAAACGTGCCATAAAAATATAAAAAAA-GTGGCATAAAAAGACAGA
1 CGAAAACGTGCCATAAAAATAAAAAAAAAGGTGGCATAAAAAGACAGA
*
880047 CGAAAACGTGTCATAAAAA
1 CGAAAACGTGCCATAAAAA
880066 CATACTTATT
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
47 36 0.57
48 10 0.16
49 17 0.27
ACGTcount: A:0.57, C:0.14, G:0.17, T:0.11
Consensus pattern (48 bp):
CGAAAACGTGCCATAAAAATAAAAAAAAAGGTGGCATAAAAAGACAGA
Found at i:880458 original size:55 final size:55
Alignment explanation
Indices: 880389--880498 Score: 175
Period size: 55 Copynumber: 2.0 Consensus size: 55
880379 ATAAAACAAT
* *
880389 TATAAAATATGTCATAATATTATATCCCTAAGACAAATACTGAGAAGGCACGGAA
1 TATAAAATAGGTCATAATATGATATCCCTAAGACAAATACTGAGAAGGCACGGAA
* * *
880444 TATAAAATAGGTCATAATATGATATCCCTAAGACAAATATTGCGAAGGGACGGAA
1 TATAAAATAGGTCATAATATGATATCCCTAAGACAAATACTGAGAAGGCACGGAA
880499 GACGGCAAGT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 50 1.00
ACGTcount: A:0.45, C:0.14, G:0.17, T:0.25
Consensus pattern (55 bp):
TATAAAATAGGTCATAATATGATATCCCTAAGACAAATACTGAGAAGGCACGGAA
Found at i:883431 original size:151 final size:148
Alignment explanation
Indices: 883236--883531 Score: 443
Period size: 151 Copynumber: 2.0 Consensus size: 148
883226 AAACTATTTA
* *
883236 AATTAGAATCAAATAATATTATAGTATTATAAATATTTACAATTAAATTTAAACAAAAACTCGAA
1 AATTAGAATCAAATAATATTATAATATGATAAATATTTACAATTAAATTTAAACAAAAACTCG--
* **
883301 AATTCAATTCAATTCAATTCGACTTGA-TTAAATTTTATAAACT-AAATCGAAAAAATTTTGAGT
64 AA---AATTCAATTCAATTCGACTTGATTTAAATTTTATAAACTCAAATCGAAAAAATTTCGACC
883364 CAACTATTTTATAAACTGAACTT
126 CAACTATTTTATAAACTGAACTT
* * * *
883387 AATTAGAATCATATAATATTATAATATGATAAATATTTATAATTAAATTTAAATAGAAACTCGAA
1 AATTAGAATCAAATAATATTATAATATGATAAATATTTACAATTAAATTTAAACAAAAACTCGAA
*
883452 AATTCAATTCAATTCGACTTGATTTAAATTTTATAAACTCAAATCGACAAAATTTCGACCCAACT
66 AATTCAATTCAATTCGACTTGATTTAAATTTTATAAACTCAAATCGAAAAAATTTCGACCCAACT
883517 ATTTTATAAACTGAA
131 ATTTTATAAACTGAA
883532 TTGAGTATTT
Statistics
Matches: 133, Mismatches: 10, Indels: 7
0.89 0.07 0.05
Matches are distributed among these distances:
146 22 0.17
147 16 0.12
148 36 0.27
149 2 0.02
151 57 0.43
ACGTcount: A:0.47, C:0.11, G:0.06, T:0.36
Consensus pattern (148 bp):
AATTAGAATCAAATAATATTATAATATGATAAATATTTACAATTAAATTTAAACAAAAACTCGAA
AATTCAATTCAATTCGACTTGATTTAAATTTTATAAACTCAAATCGAAAAAATTTCGACCCAACT
ATTTTATAAACTGAACTT
Found at i:883743 original size:35 final size:36
Alignment explanation
Indices: 883702--883782 Score: 121
Period size: 35 Copynumber: 2.3 Consensus size: 36
883692 GGGGTTGGGC
*
883702 ATGTAATTGAAGT-GTTTTGAATTTT-GAGGTTTAGA
1 ATGTAATTGAA-TCATTTTGAATTTTGGAGGTTTAGA
*
883737 ATGTAATTGAATCATTTTGAATTTTGGGGGTTTAGA
1 ATGTAATTGAATCATTTTGAATTTTGGAGGTTTAGA
883773 ATGTAATTGA
1 ATGTAATTGA
883783 TGACTATGTT
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
34 1 0.02
35 22 0.52
36 19 0.45
ACGTcount: A:0.30, C:0.01, G:0.25, T:0.44
Consensus pattern (36 bp):
ATGTAATTGAATCATTTTGAATTTTGGAGGTTTAGA
Found at i:885795 original size:31 final size:31
Alignment explanation
Indices: 885759--885817 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
885749 AACTTAAAAG
885759 AGTTTTACAATACTGAAATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
*
885790 AGTTTTATAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
885818 CTATATAACT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:885869 original size:22 final size:22
Alignment explanation
Indices: 885841--886020 Score: 279
Period size: 22 Copynumber: 8.2 Consensus size: 22
885831 ATAATAATTT
885841 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
885863 TTTTAAAATAAATCAATACATA
1 TTTTAAAATAAATCAATCCATA
*
885885 TTTTAAAATCAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
885907 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
* *** *
885929 TTTTAAAATAATTTTTTTCATA
1 TTTTAAAATAAATCAATCCATA
*
885951 TTTTAAAATAAATAAATCCATA
1 TTTTAAAATAAATCAATCCATA
885973 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
885995 TTTTAAAATAAATCTATCCATA
1 TTTTAAAATAAATCAATCCATA
886017 TTTT
1 TTTT
886021 TGAAGGAATG
Statistics
Matches: 142, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 142 1.00
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (22 bp):
TTTTAAAATAAATCAATCCATA
Found at i:898792 original size:48 final size:48
Alignment explanation
Indices: 898740--899280 Score: 485
Period size: 48 Copynumber: 11.3 Consensus size: 48
898730 TCCCTCACCC
*
898740 CCACCTCCACCATCTCCTAGTCCCCCACCACCATACTACTACAAGTCT
1 CCACCTCCACCATCTCCTAGTCCCCCACCACCATACTACTACAAGTCA
* * * * *
898788 CCACCTCCACCCTCACCAAGTCCCCCGCCACCATACTATTACAAGTCA
1 CCACCTCCACCATCTCCTAGTCCCCCACCACCATACTACTACAAGTCA
* * * * *
898836 CCACCTCCACCATCTCCCTCA--CCACCGCCTCCCTACATA-TACAAGTCT
1 CCACCTCCACCATCT-CCT-AGTCCCCCACCACCATAC-TACTACAAGTCA
* * *
898884 CCGCCTCCACCCTCTCCTAGTCCCCCACCACCATACTACTACAAATCA
1 CCACCTCCACCATCTCCTAGTCCCCCACCACCATACTACTACAAGTCA
* * * * *
898932 CCACCTCCACCATCTTCCTCA--CCACCGCCTCCCTACATA-TACAAGTCT
1 CCACCTCCACCATC-TCCT-AGTCCCCCACCACCATAC-TACTACAAGTCA
* * *
898980 CCGCCTCCACCCTCTCCTAGTCCCCCACCACCATACTACTACAAATCA
1 CCACCTCCACCATCTCCTAGTCCCCCACCACCATACTACTACAAGTCA
* * * * * *
899028 CCACCTCCACCATCTTCCTCA--CCACCGCCTCCCTAC-ATTTACAAGTCT
1 CCACCTCCACCATC-TCCT-AGTCCCCCACCACCATACTA-CTACAAGTCA
* * * * * * *
899076 CCACCTCCACCTTCACCTAG-CCCACCACCGCCATACTATTATATGTCT
1 CCACCTCCACCATCTCCTAGTCCC-CCACCACCATACTACTACAAGTCA
* *
899124 CCACCTCCGCCCTCTCCTAGTCCCCCACCACCATACTACTACAAGTCA
1 CCACCTCCACCATCTCCTAGTCCCCCACCACCATACTACTACAAGTCA
* * * *
899172 CCACCGCCACCATCTCTTAGTCCCCCGCCACCATATTACTACAAGTCA
1 CCACCTCCACCATCTCCTAGTCCCCCACCACCATACTACTACAAGTCA
* * *
899220 CCACCCCCACCATCTCC--GTCACCACCACCACCTTACTATTACAAGTCA
1 CCACCTCCACCATCTCCTAGTC-CC-CCACCACCATACTACTACAAGTCA
*
899268 CCCCCTCCACCAT
1 CCACCTCCACCAT
899281 ATCTTCACTA
Statistics
Matches: 396, Mismatches: 76, Indels: 42
0.77 0.15 0.08
Matches are distributed among these distances:
46 6 0.02
47 19 0.05
48 350 0.88
49 18 0.05
50 3 0.01
ACGTcount: A:0.24, C:0.50, G:0.05, T:0.21
Consensus pattern (48 bp):
CCACCTCCACCATCTCCTAGTCCCCCACCACCATACTACTACAAGTCA
Found at i:898848 original size:96 final size:94
Alignment explanation
Indices: 898740--899278 Score: 580
Period size: 96 Copynumber: 5.6 Consensus size: 94
898730 TCCCTCACCC
* * *
898740 CCACCTCCACCATCTCCT-AGTCCCCCACCACCATACTACTACAAGTCTCCACCTCCACCCTCAC
1 CCACCTCCACCATCTCCTCA--CCACCACCACCCTACTA-TACAAGTCTCCACCTCCACCCTCTC
* * *
898804 CAAGTCCCCCGCCACCATACTATTACAAGTCA
63 CTAGTCCCCCACCACCATACTACTACAAGTCA
* * *
898836 CCACCTCCACCATCTCCCTCACCACCGCCTCCCTACATATACAAGTCTCCGCCTCCACCCTCTCC
1 CCACCTCCACCATCT-CCTCACCACCACCACCCTAC-TATACAAGTCTCCACCTCCACCCTCTCC
*
898901 TAGTCCCCCACCACCATACTACTACAAATCA
64 TAGTCCCCCACCACCATACTACTACAAGTCA
* * *
898932 CCACCTCCACCATCTTCCTCACCACCGCCTCCCTACATATACAAGTCTCCGCCTCCACCCTCTCC
1 CCACCTCCACCATC-TCCTCACCACCACCACCCTAC-TATACAAGTCTCCACCTCCACCCTCTCC
*
898997 TAGTCCCCCACCACCATACTACTACAAATCA
64 TAGTCCCCCACCACCATACTACTACAAGTCA
* * * * *
899028 CCACCTCCACCATCTTCCTCACCACCGCCTCCCTACATTTACAAGTCTCCACCTCCACCTTCACC
1 CCACCTCCACCATC-TCCTCACCACCACCACCCTAC-TATACAAGTCTCCACCTCCACCCTCTCC
* * * * *
899093 TAG-CCCACCACCGCCATACTATTATATGTCT
64 TAGTCCC-CCACCACCATACTACTACAAGTCA
* * * * * * *
899124 CCACCTCCGCCCTCTCCT-AGTCCCCCACCACCATACTACTACAAGTCACCACCGCCACCATCTC
1 CCACCTCCACCATCTCCTCA--CCACCACCACCCTACTA-TACAAGTCTCCACCTCCACCCTCTC
* * *
899188 TTAGTCCCCCGCCACCATATTACTACAAGTCA
63 CTAGTCCCCCACCACCATACTACTACAAGTCA
* * * *
899220 CCACCCCCACCATCTCCGTCACCACCACCACCTTACTATTACAAGTCACCCCCTCCACC
1 CCACCTCCACCATCTCC-TCACCACCACCACCCTACTA-TACAAGTCTCCACCTCCACC
899279 ATATCTTCAC
Statistics
Matches: 385, Mismatches: 47, Indels: 22
0.85 0.10 0.05
Matches are distributed among these distances:
94 1 0.00
95 8 0.02
96 364 0.95
97 10 0.03
98 2 0.01
ACGTcount: A:0.24, C:0.51, G:0.05, T:0.20
Consensus pattern (94 bp):
CCACCTCCACCATCTCCTCACCACCACCACCCTACTATACAAGTCTCCACCTCCACCCTCTCCTA
GTCCCCCACCACCATACTACTACAAGTCA
Found at i:898977 original size:192 final size:191
Alignment explanation
Indices: 898740--899278 Score: 663
Period size: 192 Copynumber: 2.8 Consensus size: 191
898730 TCCCTCACCC
* *
898740 CCACCTCCACCATCTCCTAGTCCCCCACCACCATACTACTACAAGTCTCCACCTCCACCCTCACC
1 CCACCTCCACCATCTCCTAG-CCACCACCACCATACTACTACAAGTCTCCACCTCCACCCTCTCC
* *
898805 AAGTCCCCCGCCACCATACTATTACAAGTCACCACCTCCACCATCTCCCTCACCACCGCCTCCCT
65 TAGTCCCCCGCCACCATACTACTACAAGTCACCACCTCCACCATCTCCCTCACCACCGCCTCCCT
* *
898870 ACATATACAAGTCTCCGCCTCCACCCTCTCCTAGTCCC-CCACCACCATACTACTACAAATCA
130 ACATATACAAGTCTCCACCTCCACCCTCACCTAG-CCCACCACCACCATACTACTACAAATCA
* * * *
898932 CCACCTCCACCATCTTCCTCA-CCACCGCCTCCCTACATA-TACAAGTCTCCGCCTCCACCCTCT
1 CCACCTCCACCATC-TCCT-AGCCACCACCACCATAC-TACTACAAGTCTCCACCTCCACCCTCT
* * *
898995 CCTAGTCCCCCACCACCATACTACTACAAATCACCACCTCCACCATCTTCCTCACCACCGCCTCC
63 CCTAGTCCCCCGCCACCATACTACTACAAGTCACCACCTCCACCATCTCCCTCACCACCGCCTCC
* * * * * ** *
899060 CTACATTTACAAGTCTCCACCTCCACCTTCACCTAGCCCACCACCGCCATACTATTATATGTCT
128 CTACATATACAAGTCTCCACCTCCACCCTCACCTAGCCCACCACCACCATACTACTACAAATCA
* * * * * * *
899124 CCACCTCCGCCCTCTCCTAGTCCCCCACCACCATACTACTACAAGTCACCACCGCCACCATCTCT
1 CCACCTCCACCATCTCCTAG-CCACCACCACCATACTACTACAAGTCTCCACCTCCACCCTCTCC
* * * * * *
899189 TAGTCCCCCGCCACCATATTACTACAAGTCACCACCCCCACCATCTCCGTCACCACCACCACCTT
65 TAGTCCCCCGCCACCATACTACTACAAGTCACCACCTCCACCATCTCCCTCACCACCGCCTCCCT
* *
899254 AC-TATTACAAGTCACCCCCTCCACC
130 ACATA-TACAAGTCTCCACCTCCACC
899279 ATATCTTCAC
Statistics
Matches: 295, Mismatches: 44, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
190 1 0.00
191 10 0.03
192 277 0.94
193 6 0.02
194 1 0.00
ACGTcount: A:0.24, C:0.51, G:0.05, T:0.20
Consensus pattern (191 bp):
CCACCTCCACCATCTCCTAGCCACCACCACCATACTACTACAAGTCTCCACCTCCACCCTCTCCT
AGTCCCCCGCCACCATACTACTACAAGTCACCACCTCCACCATCTCCCTCACCACCGCCTCCCTA
CATATACAAGTCTCCACCTCCACCCTCACCTAGCCCACCACCACCATACTACTACAAATCA
Found at i:906489 original size:21 final size:21
Alignment explanation
Indices: 906465--906509 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
906455 TAATTTTAAA
*
906465 AAAATTAAAAATTTAAATACT
1 AAAACTAAAAATTTAAATACT
* *
906486 AAAACTAATAATTTAGATACT
1 AAAACTAAAAATTTAAATACT
906507 AAA
1 AAA
906510 TGTATAGTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.31
Consensus pattern (21 bp):
AAAACTAAAAATTTAAATACT
Found at i:906850 original size:27 final size:28
Alignment explanation
Indices: 906814--906873 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 28
906804 TAAAATTATT
*
906814 ATAAACACAT-TAAAATATAAAAAATAAA
1 ATAAACACATAAAAAATAT-AAAAATAAA
*
906842 ATAAA-ACATAAAAAATATAAAAATATA
1 ATAAACACATAAAAAATATAAAAATAAA
906869 ATAAA
1 ATAAA
906874 TTATAAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 17 0.59
28 12 0.41
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (28 bp):
ATAAACACATAAAAAATATAAAAATAAA
Found at i:906878 original size:10 final size:8
Alignment explanation
Indices: 906825--906885 Score: 60
Period size: 7 Copynumber: 8.1 Consensus size: 8
906815 TAAACACATT
906825 AAAATATA
1 AAAATATA
906833 AAAA-AT-
1 AAAATATA
906839 AAAATA-A
1 AAAATATA
*
906846 AACATA-A
1 AAAATATA
906853 AAAATATA
1 AAAATATA
906861 AAAATATA
1 AAAATATA
906869 ATAAAT-TA
1 A-AAATATA
*
906877 TAAATATA
1 AAAATATA
906885 A
1 A
906886 CAATCGACTA
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
6 4 0.09
7 18 0.41
8 18 0.41
9 4 0.09
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.25
Consensus pattern (8 bp):
AAAATATA
Found at i:915447 original size:16 final size:16
Alignment explanation
Indices: 915411--915441 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
915401 AAATTTATAT
915411 GTTTAATATAATTTTA
1 GTTTAATATAATTTTA
*
915427 GTTTAATATTATTTT
1 GTTTAATATAATTTT
915442 GATTTATATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.61
Consensus pattern (16 bp):
GTTTAATATAATTTTA
Found at i:919253 original size:18 final size:18
Alignment explanation
Indices: 919230--919286 Score: 96
Period size: 18 Copynumber: 3.2 Consensus size: 18
919220 AACCCAACCC
919230 GACCCGACCCGACCCGTT
1 GACCCGACCCGACCCGTT
* *
919248 GACCCGACCCAACCTGTT
1 GACCCGACCCGACCCGTT
919266 GACCCGACCCGACCCGTT
1 GACCCGACCCGACCCGTT
919284 GAC
1 GAC
919287 AGTTGATCGA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.19, C:0.47, G:0.21, T:0.12
Consensus pattern (18 bp):
GACCCGACCCGACCCGTT
Found at i:927827 original size:18 final size:17
Alignment explanation
Indices: 927804--927837 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
927794 ATCCCTCACA
927804 AATATTAAAAACAATAAT
1 AATATTAAAAA-AATAAT
*
927822 AATATTTAAAAAATAA
1 AATATTAAAAAAATAA
927838 GCATAAATTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (17 bp):
AATATTAAAAAAATAAT
Found at i:927950 original size:20 final size:21
Alignment explanation
Indices: 927925--927963 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
927915 ATTGGTTAAA
*
927925 AATTA-TTAAAAAATTAATAT
1 AATTATTTAAAAAAATAATAT
927945 AATTATTTAAAAAAATAAT
1 AATTATTTAAAAAAATAAT
927964 TTTTGTTGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
AATTATTTAAAAAAATAATAT
Found at i:931548 original size:9 final size:10
Alignment explanation
Indices: 931523--931549 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
931513 TTTACCAAAC
931523 CCAAAAAGAG
1 CCAAAAAGAG
931533 CCAAAAAGAG
1 CCAAAAAGAG
931543 CCAAAAA
1 CCAAAAA
931550 ACCTTCAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.63, C:0.22, G:0.15, T:0.00
Consensus pattern (10 bp):
CCAAAAAGAG
Found at i:941757 original size:26 final size:26
Alignment explanation
Indices: 941699--941759 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
941689 AATACATCAC
* * *
941699 ATTACATCAGAAACATTAACCCCTAC
1 ATTACATTAGAAACATTAACCCATAA
* * *
941725 ATAACATTTGAAACATTAACTCATAA
1 ATTACATTAGAAACATTAACCCATAA
941751 ATTACATTA
1 ATTACATTA
941760 CAATACAATA
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.46, C:0.21, G:0.03, T:0.30
Consensus pattern (26 bp):
ATTACATTAGAAACATTAACCCATAA
Found at i:952016 original size:129 final size:126
Alignment explanation
Indices: 951789--952020 Score: 342
Period size: 129 Copynumber: 1.8 Consensus size: 126
951779 TGAAATGATA
**
951789 TTGTTTTCTTGTTTTTTAAGTGGGCTGTTTCCTTCCATCCTTTGCTTTGCCTTTCCCCCACCTTT
1 TTGTTTTCTTGTTTGGTAAGTGGGCTGTTTCCTTCCATCCTTTGCTTTGCCTTTCCCCCACCTTT
*
951854 TCTTTCCTTTGTGTGGTATTGTTATTTAGGGGATTCACGTGGGACACAAGGTAAAAGTGTT
66 TCTTTCCTTTGTGTGGTATTGATATTTAGGGGATTCACGTGGGACACAAGGTAAAAGTGTT
* *
951915 TTGTTTTCTTGTTTCGGGTAAGT-GGTTGTTTCTTTCCATCCTTTGCTTTGCCTTTTCCCCC-CT
1 TTGTTTTCTTGTTT--GGTAAGTGGGCTGTTTCCTTCCATCCTTTGCTTTGCC-TTTCCCCCAC-
* *
951978 CTTTATCTTTCTTTTGTGTGGTATTGATATTTATGGGATTCAC
62 CTTT-TCTTTCCTTTGTGTGGTATTGATATTTAGGGGATTCAC
952021 ATTTCTTTTG
Statistics
Matches: 94, Mismatches: 7, Indels: 7
0.87 0.06 0.06
Matches are distributed among these distances:
126 14 0.15
127 28 0.30
128 17 0.18
129 35 0.37
ACGTcount: A:0.12, C:0.20, G:0.19, T:0.49
Consensus pattern (126 bp):
TTGTTTTCTTGTTTGGTAAGTGGGCTGTTTCCTTCCATCCTTTGCTTTGCCTTTCCCCCACCTTT
TCTTTCCTTTGTGTGGTATTGATATTTAGGGGATTCACGTGGGACACAAGGTAAAAGTGTT
Found at i:952035 original size:37 final size:37
Alignment explanation
Indices: 951985--952059 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
951975 CCTCTTTATC
951985 TTTCTTTTGTGTGGTATTGATATTTATGGGATTCACA
1 TTTCTTTTGTGTGGTATTGATATTTATGGGATTCACA
952022 TTTCTTTTGTGTGGTATTGATATTTATGGGATTCACA
1 TTTCTTTTGTGTGGTATTGATATTTATGGGATTCACA
952059 T
1 T
952060 GGGACGCAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.19, C:0.08, G:0.21, T:0.52
Consensus pattern (37 bp):
TTTCTTTTGTGTGGTATTGATATTTATGGGATTCACA
Found at i:974211 original size:2 final size:2
Alignment explanation
Indices: 974204--974235 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
974194 AGCAGACATA
974204 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
974236 TACAAAACAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:975217 original size:19 final size:20
Alignment explanation
Indices: 975193--975243 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
975183 ACTTTACTCG
*
975193 TAATTTTATAAAAT-TAATT
1 TAATTTTATAAAATAAAATT
*
975212 TAATTTT-TTAAATAAAATT
1 TAATTTTATAAAATAAAATT
975231 TAA-TTTATAAAAT
1 TAATTTTATAAAAT
975244 GACTTAAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 8 0.30
19 19 0.70
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TAATTTTATAAAATAAAATT
Found at i:976995 original size:18 final size:19
Alignment explanation
Indices: 976956--976996 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
976946 GTAATGATTT
* *
976956 GATC-CCCGGTTAGTTTCT
1 GATCACCCGGTTAGTATCG
976974 GATCACCCGG-TAGTATCG
1 GATCACCCGGTTAGTATCG
976992 GATCA
1 GATCA
976997 AATTCGAGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.20, C:0.27, G:0.24, T:0.29
Consensus pattern (19 bp):
GATCACCCGGTTAGTATCG
Found at i:983490 original size:22 final size:22
Alignment explanation
Indices: 983462--983507 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
983452 TCTGATTAGG
*
983462 GATGGGGATGAAACTCGAACCT
1 GATGGGGATGAAACCCGAACCT
*
983484 GATGGGGATGGAACCCGAACCT
1 GATGGGGATGAAACCCGAACCT
983506 GA
1 GA
983508 CGGGTTCCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.30, C:0.20, G:0.35, T:0.15
Consensus pattern (22 bp):
GATGGGGATGAAACCCGAACCT
Found at i:991227 original size:20 final size:18
Alignment explanation
Indices: 991202--991238 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 18
991192 TTGAGATTTG
991202 GTATAAAAACTAAAAAAAAT
1 GTAT-AAAAC-AAAAAAAAT
991222 GTATAAAACAAAAAAAA
1 GTATAAAACAAAAAAAA
991239 ACATTCTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
19 5 0.29
20 4 0.24
ACGTcount: A:0.73, C:0.05, G:0.05, T:0.16
Consensus pattern (18 bp):
GTATAAAACAAAAAAAAT
Found at i:991235 original size:19 final size:20
Alignment explanation
Indices: 991202--991239 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
991192 TTGAGATTTG
*
991202 GTATAAAAACTAAAAAAAAT
1 GTATAAAAACAAAAAAAAAT
991222 GTAT-AAAACAAAAAAAAA
1 GTATAAAAACAAAAAAAAA
991240 CATTCTCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.74, C:0.05, G:0.05, T:0.16
Consensus pattern (20 bp):
GTATAAAAACAAAAAAAAAT
Found at i:999009 original size:22 final size:22
Alignment explanation
Indices: 998984--999042 Score: 100
Period size: 22 Copynumber: 2.7 Consensus size: 22
998974 GTAATTTGCA
998984 CCGAATGACCACATAATTTATC
1 CCGAATGACCACATAATTTATC
*
999006 CCGAATGACCATATAATTTATC
1 CCGAATGACCACATAATTTATC
*
999028 CCGCATGACCACATA
1 CCGAATGACCACATA
999043 GAACCCTCGA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.36, C:0.29, G:0.10, T:0.25
Consensus pattern (22 bp):
CCGAATGACCACATAATTTATC
Found at i:1001217 original size:32 final size:32
Alignment explanation
Indices: 1001176--1001239 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
1001166 AAACCAAAAC
1001176 CCAATCAATGTATTCTTCTCGTTTCTTCTTCT
1 CCAATCAATGTATTCTTCTCGTTTCTTCTTCT
1001208 CCAATCAATGTATTCTTCTCGTTTCTTCTTCT
1 CCAATCAATGTATTCTTCTCGTTTCTTCTTCT
1001240 ATAATTTAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.16, C:0.28, G:0.06, T:0.50
Consensus pattern (32 bp):
CCAATCAATGTATTCTTCTCGTTTCTTCTTCT
Found at i:1005043 original size:15 final size:15
Alignment explanation
Indices: 1005023--1005061 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
1005013 GTTAAGTCCA
1005023 TCGACTATTGATCAC
1 TCGACTATTGATCAC
1005038 TCGACTATTGATCAC
1 TCGACTATTGATCAC
1005053 TCGACTATT
1 TCGACTATT
1005062 CATTATGTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.26, C:0.26, G:0.13, T:0.36
Consensus pattern (15 bp):
TCGACTATTGATCAC
Found at i:1006224 original size:73 final size:74
Alignment explanation
Indices: 1006137--1006283 Score: 287
Period size: 73 Copynumber: 2.0 Consensus size: 74
1006127 TCAATTAGCT
1006137 TTTGAACTTTATCCCACTTTTTTCTCTAATCAAGGGTAAG-AAAATGAATTTCTAAGTTAACTAT
1 TTTGAACTTTATCCCACTTTTTTCTCTAATCAAGGGTAAGAAAAATGAATTTCTAAGTTAACTAT
1006201 GTGGTGGAA
66 GTGGTGGAA
1006210 TTTGAACTTTATCCCACTTTTTTCTCTAATCAAGGGTAAGAAAAATGAATTTCTAAGTTAACTAT
1 TTTGAACTTTATCCCACTTTTTTCTCTAATCAAGGGTAAGAAAAATGAATTTCTAAGTTAACTAT
1006275 GTGGTGGAA
66 GTGGTGGAA
1006284 ATAAAGATGA
Statistics
Matches: 73, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
73 40 0.55
74 33 0.45
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (74 bp):
TTTGAACTTTATCCCACTTTTTTCTCTAATCAAGGGTAAGAAAAATGAATTTCTAAGTTAACTAT
GTGGTGGAA
Found at i:1006301 original size:73 final size:73
Alignment explanation
Indices: 1006151--1006301 Score: 214
Period size: 73 Copynumber: 2.1 Consensus size: 73
1006141 AACTTTATCC
* *
1006151 CACTTTTTTCTCTAATCAAGGGTAAGAAAATGAATTTCTAAGTTAACTATGTGGTGGAATTTGAA
1 CACTTTTTTCTCTAATCAAGGGTAAGAAAATGAATTTCTAAGTTAACTATGTGGTGGAATATAAA
* * ***
1006216 CTTTATCC
66 CATGAGAA
1006224 CACTTTTTTCTCTAATCAAGGGTAAGAAAAATGAATTTCTAAGTTAACTATGTGGTGGAA-ATAA
1 CACTTTTTTCTCTAATCAAGGGTAAG-AAAATGAATTTCTAAGTTAACTATGTGGTGGAATATAA
*
1006288 AGATGAGAA
65 ACATGAGAA
1006297 CACTT
1 CACTT
1006302 GTAATACCCC
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
73 36 0.52
74 33 0.48
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (73 bp):
CACTTTTTTCTCTAATCAAGGGTAAGAAAATGAATTTCTAAGTTAACTATGTGGTGGAATATAAA
CATGAGAA
Found at i:1038000 original size:17 final size:19
Alignment explanation
Indices: 1037974--1038015 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 19
1037964 ATTAGATTAT
1037974 TTTAAT-TATTAAATT-TG
1 TTTAATATATTAAATTGTG
*
1037991 -TTAATATATTTAATTGTG
1 TTTAATATATTAAATTGTG
1038009 TTTAATA
1 TTTAATA
1038016 ATTTAATGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 5 0.24
17 8 0.38
18 2 0.10
19 6 0.29
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (19 bp):
TTTAATATATTAAATTGTG
Found at i:1038010 original size:18 final size:18
Alignment explanation
Indices: 1037974--1038022 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
1037964 ATTAGATTAT
*
1037974 TTTAAT-TATTAAATTTG
1 TTTAATATATTTAATTTG
1037991 -TTAATATATTTAATTGTG
1 TTTAATATATTTAATT-TG
1038009 TTTAATA-ATTTAAT
1 TTTAATATATTTAAT
1038023 GCACGAACCA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 5 0.18
17 8 0.29
18 9 0.32
19 6 0.21
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (18 bp):
TTTAATATATTTAATTTG
Found at i:1038489 original size:2 final size:2
Alignment explanation
Indices: 1038482--1038508 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1038472 ACAAAACTAC
1038482 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1038509 ACTACCAGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:1059144 original size:19 final size:20
Alignment explanation
Indices: 1059106--1059144 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
1059096 TTTTCTATTG
* *
1059106 AAAATTTGTTTTCTCCCCCT
1 AAAATTTGTATTCGCCCCCT
1059126 AAAATTT-TATTCGCCCCCT
1 AAAATTTGTATTCGCCCCCT
1059145 TGGAATTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.23, C:0.31, G:0.05, T:0.41
Consensus pattern (20 bp):
AAAATTTGTATTCGCCCCCT
Found at i:1060386 original size:79 final size:79
Alignment explanation
Indices: 1060297--1060451 Score: 301
Period size: 79 Copynumber: 2.0 Consensus size: 79
1060287 AAAAGGTAAA
1060297 AAAATATAAGTATTATTATTTATTAAATTTTCTAATAGTACATTTTGAATGAGGTGATTTTAAAA
1 AAAATATAAGTATTATTATTTATTAAATTTTCTAATAGTACATTTTGAATGAGGTGATTTTAAAA
1060362 TTCAAAATGGAATT
66 TTCAAAATGGAATT
*
1060376 AAAATATAAGTATTATTATTTGTTAAATTTTCTAATAGTACATTTTGAATGAGGTGATTTTAAAA
1 AAAATATAAGTATTATTATTTATTAAATTTTCTAATAGTACATTTTGAATGAGGTGATTTTAAAA
1060441 TTCAAAATGGA
66 TTCAAAATGGA
1060452 TAAATTTAAT
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 75 1.00
ACGTcount: A:0.41, C:0.04, G:0.12, T:0.43
Consensus pattern (79 bp):
AAAATATAAGTATTATTATTTATTAAATTTTCTAATAGTACATTTTGAATGAGGTGATTTTAAAA
TTCAAAATGGAATT
Found at i:1062305 original size:2 final size:2
Alignment explanation
Indices: 1062298--1062328 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1062288 GCAATATTTA
1062298 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1062329 ACAGGTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:1068878 original size:2 final size:2
Alignment explanation
Indices: 1068871--1068904 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1068861 TTATGAATTA
1068871 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
1068905 TTAAACAACT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1095432 original size:13 final size:12
Alignment explanation
Indices: 1095402--1095448 Score: 53
Period size: 14 Copynumber: 3.8 Consensus size: 12
1095392 AAACGAACAC
1095402 AAACGAACGAATAT
1 AAACGAAC-AA-AT
1095416 AAACGAACACAAT
1 AAACGAACA-AAT
1095429 AAACG-A-AAAT
1 AAACGAACAAAT
1095439 AAACGAACAA
1 AAACGAACAA
1095449 CACAAACACA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
10 8 0.27
11 2 0.07
12 3 0.10
13 8 0.27
14 9 0.30
ACGTcount: A:0.64, C:0.17, G:0.11, T:0.09
Consensus pattern (12 bp):
AAACGAACAAAT
Found at i:1095455 original size:23 final size:23
Alignment explanation
Indices: 1095382--1095455 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 23
1095372 TTTAAATGAT
** *
1095382 AAACGAACGTAAACGAACACAAAC
1 AAACGAAAATAAACGAACA-ACAC
* * *
1095406 GAACGAATATAAACGAAC-ACAAT
1 AAACGAAAATAAACGAACAAC-AC
1095429 AAACGAAAATAAACGAACAACAC
1 AAACGAAAATAAACGAACAACAC
1095452 AAAC
1 AAAC
1095456 ACAAAAAATG
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
22 1 0.03
23 22 0.55
24 17 0.43
ACGTcount: A:0.61, C:0.22, G:0.11, T:0.07
Consensus pattern (23 bp):
AAACGAAAATAAACGAACAACAC
Found at i:1099150 original size:153 final size:153
Alignment explanation
Indices: 1098871--1099177 Score: 598
Period size: 153 Copynumber: 2.0 Consensus size: 153
1098861 ATATTAACAG
1098871 AGTATCAATGAAAGCATGCCATATTAACAGCGTGTCATACTCCCAGACAATCTTCACAAGGAAAA
1 AGTATCAATGAAAGCATGCCATATTAACAGCGTGTCATACTCCCAGACAATCTTCACAAGGAAAA
1098936 ATTCCCTTTGCAGAATATGATGATAACTACAATTTGAATCAATTAAAGAATCAGAGAAATGAAAT
66 ATTCCCTTTGCAGAATATGATGATAACTACAATTTGAATCAATTAAAGAATCAGAGAAATGAAAT
1099001 AACAATAGAAAATACTTTAAAAA
131 AACAATAGAAAATACTTTAAAAA
1099024 AGTATCAATGAAAGCATGCCATATTAACAGCGTGTCATACTCCCAGACAATCTTCACAAGGAAAA
1 AGTATCAATGAAAGCATGCCATATTAACAGCGTGTCATACTCCCAGACAATCTTCACAAGGAAAA
1099089 ATTCCCTTTGCAGAATATGATGATAACTACAATTTGAATCAATTAAAGAATTCAGAG-AATGAAA
66 ATTCCCTTTGCAGAATATGATGATAACTACAATTTGAATCAATTAAAGAA-TCAGAGAAATGAAA
1099153 TAACAATAGAAAATACTTTAAAAA
130 TAACAATAGAAAATACTTTAAAAA
1099177 A
1 A
1099178 CCCTTACATA
Statistics
Matches: 153, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
153 147 0.96
154 6 0.04
ACGTcount: A:0.46, C:0.16, G:0.13, T:0.25
Consensus pattern (153 bp):
AGTATCAATGAAAGCATGCCATATTAACAGCGTGTCATACTCCCAGACAATCTTCACAAGGAAAA
ATTCCCTTTGCAGAATATGATGATAACTACAATTTGAATCAATTAAAGAATCAGAGAAATGAAAT
AACAATAGAAAATACTTTAAAAA
Found at i:1102464 original size:2 final size:2
Alignment explanation
Indices: 1102457--1102485 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1102447 ACTGTTCCAG
1102457 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 T
1102486 TCATTTCAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1103986 original size:8 final size:8
Alignment explanation
Indices: 1103975--1104032 Score: 59
Period size: 8 Copynumber: 7.4 Consensus size: 8
1103965 TAATTATAAA
1103975 ATTTATAT
1 ATTTATAT
1103983 ATTTATAT
1 ATTTATAT
1103991 -TTATATAT
1 ATT-TATAT
*
1103999 ATATATAT
1 ATTTATAT
*
1104007 ATTAATAT
1 ATTTATAT
1104015 -TTGTATAT
1 ATT-TATAT
1104023 ATTTAT-T
1 ATTTATAT
1104030 ATT
1 ATT
1104033 AAATTTAAGC
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
7 8 0.19
8 31 0.74
9 3 0.07
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (8 bp):
ATTTATAT
Found at i:1104008 original size:24 final size:24
Alignment explanation
Indices: 1103978--1104039 Score: 83
Period size: 24 Copynumber: 2.7 Consensus size: 24
1103968 TTATAAAATT
*
1103978 TATATATTTATATTTATATATATA
1 TATATATTAATATTTATATATATA
* *
1104002 TATATATTAATATTTGTATATATT
1 TATATATTAATATTTATATATATA
1104026 TAT-TATTAA-ATTTA
1 TATATATTAATATTTA
1104040 AGCTAAAGCT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 4 0.12
23 6 0.18
24 24 0.71
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (24 bp):
TATATATTAATATTTATATATATA
Found at i:1109127 original size:17 final size:17
Alignment explanation
Indices: 1109096--1109130 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
1109086 CCTGAGTCAT
1109096 AATATAATAATTATTTA
1 AATATAATAATTATTTA
1109113 AATA-AATAATATATTTA
1 AATATAATAAT-TATTTA
1109130 A
1 A
1109131 TATCTAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
AATATAATAATTATTTA
Found at i:1109132 original size:16 final size:16
Alignment explanation
Indices: 1109095--1109133 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
1109085 CCCTGAGTCA
1109095 TAATATAATAATTATT
1 TAATATAATAATTATT
1109111 TAA-ATAAATAATATATT
1 TAATAT-AATAAT-TATT
1109128 TAATAT
1 TAATAT
1109134 CTAAATTATC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 2 0.10
16 9 0.45
17 7 0.35
18 2 0.10
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TAATATAATAATTATT
Found at i:1109138 original size:24 final size:24
Alignment explanation
Indices: 1109094--1109139 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
1109084 ACCCTGAGTC
*
1109094 ATAATATAATAATTATTTAAATAA
1 ATAATATAATAATTATCTAAATAA
*
1109118 ATAATATATTTAA-TATCTAAAT
1 ATAATATA-ATAATTATCTAAAT
1109140 TATCAGTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 16 0.84
25 3 0.16
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (24 bp):
ATAATATAATAATTATCTAAATAA
Found at i:1111062 original size:93 final size:94
Alignment explanation
Indices: 1110954--1111125 Score: 312
Period size: 95 Copynumber: 1.8 Consensus size: 94
1110944 AGTTTTATAA
*
1110954 ATTTTAATATAATTAGGTTTATATATGAATGGAATAA-T-TATGGTTTTTATCTAGATATGTATC
1 ATTTTAATATAATTAGGTTTATATATGAATGGAATAATTATATGGTTTTCATCTAGATATGTATC
1111017 ATTTGAAATAATTTTTTAATGTCACATTT
66 ATTTGAAATAATTTTTTAATGTCACATTT
1111046 ATTTTAAATATAATTAGGTTTATATATGAATGGAATAATTATATGGTTTTCATCTAGATATGTAT
1 ATTTT-AATATAATTAGGTTTATATATGAATGGAATAATTATATGGTTTTCATCTAGATATGTAT
1111111 CATTTGAAATAATTT
65 CATTTGAAATAATTT
1111126 ATCATTTGAA
Statistics
Matches: 76, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
92 5 0.07
93 32 0.42
94 1 0.01
95 38 0.50
ACGTcount: A:0.36, C:0.04, G:0.12, T:0.48
Consensus pattern (94 bp):
ATTTTAATATAATTAGGTTTATATATGAATGGAATAATTATATGGTTTTCATCTAGATATGTATC
ATTTGAAATAATTTTTTAATGTCACATTT
Found at i:1111883 original size:12 final size:12
Alignment explanation
Indices: 1111866--1111894 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
1111856 TGTCAATCCA
1111866 TCTAATTTTGCT
1 TCTAATTTTGCT
1111878 TCTAATTTTGCT
1 TCTAATTTTGCT
1111890 TCTAA
1 TCTAA
1111895 AATTATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.21, C:0.17, G:0.07, T:0.55
Consensus pattern (12 bp):
TCTAATTTTGCT
Found at i:1114309 original size:17 final size:17
Alignment explanation
Indices: 1114260--1114308 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 17
1114250 ATTCTCAATG
1114260 CTTTGCTTTGCTTCTTCTTT
1 CTTT-CTTT-CTT-TTCTTT
1114280 CTTTCTTTCTTTTCTTT
1 CTTTCTTTCTTTTCTTT
*
1114297 -TTTTTTTCTTTT
1 CTTTCTTTCTTTT
1114309 TGTAGAATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 11 0.39
17 6 0.21
18 3 0.11
19 4 0.14
20 4 0.14
ACGTcount: A:0.00, C:0.20, G:0.04, T:0.76
Consensus pattern (17 bp):
CTTTCTTTCTTTTCTTT
Found at i:1119323 original size:15 final size:17
Alignment explanation
Indices: 1119296--1119328 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
1119286 TTTTCTTCAT
1119296 TTTCAACATTAGT-AAA
1 TTTCAACATTAGTCAAA
1119312 TTTCAA-ATTAGTCAAA
1 TTTCAACATTAGTCAAA
1119328 T
1 T
1119329 ATAATAGCGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.42, C:0.12, G:0.06, T:0.39
Consensus pattern (17 bp):
TTTCAACATTAGTCAAA
Found at i:1129851 original size:20 final size:19
Alignment explanation
Indices: 1129815--1129856 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
1129805 CCAGCCATTC
1129815 ATATTTTAAATTAAATAAAT
1 ATATTTTAAATTAAAT-AAT
*
1129835 ATATTTTGAA-TATAATAAT
1 ATATTTTAAATTA-AATAAT
1129854 ATA
1 ATA
1129857 ACAATATCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
ATATTTTAAATTAAATAAT
Found at i:1142200 original size:15 final size:15
Alignment explanation
Indices: 1142177--1142206 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1142167 TGTTTCTCCT
*
1142177 CTTCCCTCTCTTCCC
1 CTTCACTCTCTTCCC
1142192 CTTCACTCTCTTCCC
1 CTTCACTCTCTTCCC
1142207 ATGCAATCGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.03, C:0.57, G:0.00, T:0.40
Consensus pattern (15 bp):
CTTCACTCTCTTCCC
Found at i:1143417 original size:27 final size:29
Alignment explanation
Indices: 1143364--1143420 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
1143354 AATATTTTCG
*
1143364 AAAAAAAAGTTCGATTCGATTAACGGTTAA
1 AAAAAAAAGATCGATTCGATT-ACGGTTAA
*
1143394 AAAAAAAAGATCGGTTC-ATT-CGGTTAA
1 AAAAAAAAGATCGATTCGATTACGGTTAA
1143421 TGATAATTCG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 7 0.28
29 3 0.12
30 15 0.60
ACGTcount: A:0.46, C:0.11, G:0.18, T:0.26
Consensus pattern (29 bp):
AAAAAAAAGATCGATTCGATTACGGTTAA
Found at i:1144467 original size:17 final size:17
Alignment explanation
Indices: 1144424--1144475 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
1144414 GATACAGTAG
*
1144424 AAACTCTTTAAATTAAT
1 AAACTCTCTAAATTAAT
**
1144441 --ACTCGGTAAATTAAT
1 AAACTCTCTAAATTAAT
*
1144456 AAACTCTCTAAAATAAT
1 AAACTCTCTAAATTAAT
1144473 AAA
1 AAA
1144476 TTTGTCCGGT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
15 13 0.46
17 15 0.54
ACGTcount: A:0.50, C:0.13, G:0.04, T:0.33
Consensus pattern (17 bp):
AAACTCTCTAAATTAAT
Found at i:1149656 original size:55 final size:55
Alignment explanation
Indices: 1149572--1149682 Score: 204
Period size: 55 Copynumber: 2.0 Consensus size: 55
1149562 CCGCTTCTTG
*
1149572 GAATTGGAAACAGATAATCTCGAGGTCCGCTTCGTAGTCTCATCTAACTAGACAA
1 GAATTGGAAACAGATAATCTCGAGGTCCGCTTCGTAGCCTCATCTAACTAGACAA
*
1149627 GAATTGGAAACAGATAATCTCGAGGTCCGCTTCGTGGCCTCATCTAACTAGACAA
1 GAATTGGAAACAGATAATCTCGAGGTCCGCTTCGTAGCCTCATCTAACTAGACAA
1149682 G
1 G
1149683 CTGATTACTT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.24
Consensus pattern (55 bp):
GAATTGGAAACAGATAATCTCGAGGTCCGCTTCGTAGCCTCATCTAACTAGACAA
Found at i:1150980 original size:2 final size:2
Alignment explanation
Indices: 1150973--1151012 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
1150963 TTAAGTATTA
1150973 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
1151013 TAGATTTTGT
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:1155093 original size:43 final size:43
Alignment explanation
Indices: 1155032--1155114 Score: 139
Period size: 43 Copynumber: 1.9 Consensus size: 43
1155022 TGCTGAAAAA
* * *
1155032 TACATATAAGAGGATGCCTCTACAAATTTTAATTCAATATTAG
1 TACATAAAAGAGGATGCCTCTACAAATTTAAATGCAATATTAG
1155075 TACATAAAAGAGGATGCCTCTACAAATTTAAATGCAATAT
1 TACATAAAAGAGGATGCCTCTACAAATTTAAATGCAATAT
1155115 AGCTTTTTGT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.31
Consensus pattern (43 bp):
TACATAAAAGAGGATGCCTCTACAAATTTAAATGCAATATTAG
Found at i:1159399 original size:42 final size:42
Alignment explanation
Indices: 1159353--1159439 Score: 138
Period size: 42 Copynumber: 2.1 Consensus size: 42
1159343 AATGCATTTT
* *
1159353 GGGAAATAGCAAGGAAGAGAAAATGAAGGAAAATGCGAGAAA
1 GGGAAATAGCAAGAAAGAGAAAATGAAAGAAAATGCGAGAAA
* *
1159395 GGGAAATAGTAAGAAAGAGAAAATGAAAGAAAATGCGTGAAA
1 GGGAAATAGCAAGAAAGAGAAAATGAAAGAAAATGCGAGAAA
1159437 GGG
1 GGG
1159440 CAATGGATGA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.54, C:0.03, G:0.33, T:0.09
Consensus pattern (42 bp):
GGGAAATAGCAAGAAAGAGAAAATGAAAGAAAATGCGAGAAA
Found at i:1159774 original size:104 final size:104
Alignment explanation
Indices: 1159644--1159851 Score: 368
Period size: 106 Copynumber: 2.0 Consensus size: 104
1159634 TGAACATTTA
1159644 CATAAATAATCATTCGACGTGATCAA-TTTTATTAAAA-ATTTATCCTATTAAA-TTTATATAAA
1 CATAAATAATCATTCGACGTGATCAATTTTTATTAAAATA-TTATCCTATTAAATTTTATATAAA
1159706 TATAAAATAATCTAAAAATAATTATCACATAGTAAGCATG
65 TATAAAATAATCTAAAAATAATTATCACATAGTAAGCATG
1159746 CATAAATAATCATATTCGACGTGATCAATTTTTATTAAAATATTATCCTATTAAATTTTATATAA
1 CATAAATAATC--ATTCGACGTGATCAATTTTTATTAAAATATTATCCTATTAAATTTTATATAA
1159811 ATATAAAATAATCTAAAAATAATTATCACATAGTAAGCATG
64 ATATAAAATAATCTAAAAATAATTATCACATAGTAAGCATG
1159852 AGGGGCTATT
Statistics
Matches: 101, Mismatches: 0, Indels: 6
0.94 0.00 0.06
Matches are distributed among these distances:
102 11 0.11
104 15 0.15
105 24 0.24
106 51 0.50
ACGTcount: A:0.47, C:0.11, G:0.06, T:0.37
Consensus pattern (104 bp):
CATAAATAATCATTCGACGTGATCAATTTTTATTAAAATATTATCCTATTAAATTTTATATAAAT
ATAAAATAATCTAAAAATAATTATCACATAGTAAGCATG
Found at i:1163567 original size:35 final size:34
Alignment explanation
Indices: 1163482--1163568 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
1163472 ATTTGATATT
* *
1163482 TAAATAAAACAAACTTACAATAAGAATTAAATGG
1 TAAATGAAACAAAATTACAATAAGAATTAAATGG
*
1163516 TAAATGATAACCAAATTACAATAACTGATATTAAATGG
1 TAAATGA-AACAAAATTACAATAA--GA-ATTAAATGG
1163554 T-AAT-AAACAAAATTA
1 TAAATGAAACAAAATTA
1163569 ACTAAAATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
34 6 0.13
35 23 0.51
36 1 0.02
37 5 0.11
38 10 0.22
ACGTcount: A:0.56, C:0.09, G:0.08, T:0.26
Consensus pattern (34 bp):
TAAATGAAACAAAATTACAATAAGAATTAAATGG
Found at i:1164188 original size:18 final size:18
Alignment explanation
Indices: 1164165--1164199 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
1164155 GCGATGGCGG
1164165 CATCATATATGGCTGCGA
1 CATCATATATGGCTGCGA
1164183 CATCATATATGGCTGCG
1 CATCATATATGGCTGCG
1164200 GTGGCTGCTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.29
Consensus pattern (18 bp):
CATCATATATGGCTGCGA
Found at i:1165185 original size:11 final size:11
Alignment explanation
Indices: 1165169--1165195 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
1165159 CGAGACGAAA
1165169 GTCGCTAAGAT
1 GTCGCTAAGAT
1165180 GTCGCTAAGAT
1 GTCGCTAAGAT
1165191 GTCGC
1 GTCGC
1165196 AACCACATGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (11 bp):
GTCGCTAAGAT
Found at i:1165858 original size:111 final size:111
Alignment explanation
Indices: 1165720--1165940 Score: 370
Period size: 111 Copynumber: 2.0 Consensus size: 111
1165710 TTACAAAAAA
* *
1165720 TAATTCTTAATCTAATAATCATGCATTAAATGAATCAACTAATTACTACTAATAATTTAAATTAA
1 TAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATACTACTAATAATTTAAATTAA
** *
1165785 ATTAAAACGTTAAAATGTTACCGTATCAGTAAAGTGTCGAGATATT
66 ATTAAAACGTTAAAATGTTACCGTATCAACAAAGTGTAGAGATATT
* *
1165831 TAATTTTTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTAA
1 TAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATACTACTAATAATTTAAATTAA
*
1165896 ATTAAAACGTTAAAATGTTGCCGTATCAACAAAGTGTAGAGATAT
66 ATTAAAACGTTAAAATGTTACCGTATCAACAAAGTGTAGAGATAT
1165941 ATGATTTCCA
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
111 102 1.00
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.36
Consensus pattern (111 bp):
TAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATACTACTAATAATTTAAATTAA
ATTAAAACGTTAAAATGTTACCGTATCAACAAAGTGTAGAGATATT
Found at i:1166575 original size:19 final size:18
Alignment explanation
Indices: 1166533--1166576 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
1166523 ATCACTCTTA
*
1166533 AAATTTTAAATTTTTTAT
1 AAATTTTAAATTTTATAT
*
1166551 ATATTTTAAATTTATATAT
1 AAATTTTAAATTT-TATAT
1166570 AAATTTT
1 AAATTTT
1166577 TATTAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
AAATTTTAAATTTTATAT
Found at i:1166754 original size:15 final size:15
Alignment explanation
Indices: 1166734--1166768 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
1166724 ATTATATATA
1166734 AACTAAGAAATATTT
1 AACTAAGAAATATTT
1166749 AACTAAGAAATATTT
1 AACTAAGAAATATTT
1166764 AACTA
1 AACTA
1166769 TGTAAATGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.54, C:0.09, G:0.06, T:0.31
Consensus pattern (15 bp):
AACTAAGAAATATTT
Found at i:1169921 original size:12 final size:12
Alignment explanation
Indices: 1169904--1169930 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
1169894 ACTCTAGAGT
1169904 GAACAAAATTAC
1 GAACAAAATTAC
1169916 GAACAAAATTAC
1 GAACAAAATTAC
1169928 GAA
1 GAA
1169931 TGTTGTAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.59, C:0.15, G:0.11, T:0.15
Consensus pattern (12 bp):
GAACAAAATTAC
Found at i:1170349 original size:72 final size:72
Alignment explanation
Indices: 1170232--1170376 Score: 263
Period size: 72 Copynumber: 2.0 Consensus size: 72
1170222 ATCTCAAGAA
* *
1170232 GAGGTTCTTCTGGTAGAGATGAAGGTTCCTATACGATGCCGATATTTAGGTCAAACAAGATGGTA
1 GAGGTTCTTCTGGTAGAAATGAAGGTTCCTATACGATACCGATATTTAGGTCAAACAAGATGGTA
1170297 GTTGAAT
66 GTTGAAT
*
1170304 GAGGTTCTTCTGGTAGAAATGAAGGTTCCTATACGATACCGATATTTAGGTCAAACAAGCTGGTA
1 GAGGTTCTTCTGGTAGAAATGAAGGTTCCTATACGATACCGATATTTAGGTCAAACAAGATGGTA
1170369 GTTGAAT
66 GTTGAAT
1170376 G
1 G
1170377 CATTCCCCTT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
72 70 1.00
ACGTcount: A:0.30, C:0.13, G:0.27, T:0.30
Consensus pattern (72 bp):
GAGGTTCTTCTGGTAGAAATGAAGGTTCCTATACGATACCGATATTTAGGTCAAACAAGATGGTA
GTTGAAT
Found at i:1171437 original size:12 final size:12
Alignment explanation
Indices: 1171405--1171439 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
1171395 ATTTTGGTCA
1171405 AATAATTAAATAT
1 AATAA-TAAATAT
1171418 AA-AATAAATAT
1 AATAATAAATAT
1171429 AATAATAAATA
1 AATAATAAATA
1171440 ATTTTACATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 9 0.43
12 10 0.48
13 2 0.10
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AATAATAAATAT
Found at i:1186263 original size:6 final size:6
Alignment explanation
Indices: 1186252--1186277 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
1186242 TGTAAAAAAT
1186252 AATTTA AATTTA AATTTA AATTTA AA
1 AATTTA AATTTA AATTTA AATTTA AA
1186278 AATATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
AATTTA
Found at i:1187411 original size:204 final size:204
Alignment explanation
Indices: 1187061--1187472 Score: 590
Period size: 204 Copynumber: 2.0 Consensus size: 204
1187051 TTAAGTTTAG
* * * *
1187061 GTGATTACAAAATATTATTGGTTTTAATTACTTTCAACCATTTGACAATGAACGCTCAATCACCC
1 GTGATTACAAAATAGTACTAGTTTTAACTACTTTCAACCATTTGACAATGAACGCTCAATCACCC
* * **
1187126 TACTACATTTGCTAATACTCGAATTCGTGATCTCTATTAATAACAACCATTACTTTAACCATTGA
66 TACTACATTCGCTAATACTCGAATTCGTGAACTCTAGGAATAACAACCATTACTTTAACCATTGA
* * * *
1187191 GATAATTTGGTTCGTGCAATTTATTAAAAATATGACTAAATTGAGAGAATGTGTAAATAATATAG
131 GATAATTTGGTTCGTGCAATATATTAAAAACATGACTAAATTGAGAGAATATGTAAATAATAAAG
*
1187256 ACCAAATAT
196 ACAAAATAT
* * * *
1187265 GTGATTACAAAGTAGTACTAGTTTTAACTACTTTCAATCATTTGATAATGAACGCTTAATCACCC
1 GTGATTACAAAATAGTACTAGTTTTAACTACTTTCAACCATTTGACAATGAACGCTCAATCACCC
* ** ** * *
1187330 TACTACATTCGTTGGTGTTCTAATTTGTGAACTCTAGGAATAACAACCATTACTTTAACCATTGA
66 TACTACATTCGCTAATACTCGAATTCGTGAACTCTAGGAATAACAACCATTACTTTAACCATTGA
*
1187395 GATAATTTGTTTCGTGCAATATATTAAAAACATGACTAAATTGAGAGAATATGTAAATAATAAAG
131 GATAATTTGGTTCGTGCAATATATTAAAAACATGACTAAATTGAGAGAATATGTAAATAATAAAG
*
1187460 ACAAAATGT
196 ACAAAATAT
1187469 GTGA
1 GTGA
1187473 ATATACCAAA
Statistics
Matches: 182, Mismatches: 26, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
204 182 1.00
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (204 bp):
GTGATTACAAAATAGTACTAGTTTTAACTACTTTCAACCATTTGACAATGAACGCTCAATCACCC
TACTACATTCGCTAATACTCGAATTCGTGAACTCTAGGAATAACAACCATTACTTTAACCATTGA
GATAATTTGGTTCGTGCAATATATTAAAAACATGACTAAATTGAGAGAATATGTAAATAATAAAG
ACAAAATAT
Found at i:1187565 original size:31 final size:31
Alignment explanation
Indices: 1187527--1187585 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
1187517 TGACCACGTC
*
1187527 TTAAATAAAAACGAATGTGACCATATATTAT
1 TTAAATAAAAACGAATATGACCATATATTAT
*
1187558 TTAAATAAAAACGAATATGACCTTATAT
1 TTAAATAAAAACGAATATGACCATATAT
1187586 AAGACATGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.49, C:0.10, G:0.08, T:0.32
Consensus pattern (31 bp):
TTAAATAAAAACGAATATGACCATATATTAT
Found at i:1197759 original size:18 final size:19
Alignment explanation
Indices: 1197717--1197760 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
1197707 TTTGGTTCAC
* *
1197717 GGAATATAAGATTATTAGT
1 GGAATAAAAGATTATCAGT
1197736 GTGAATAAAAGATTATCAG-
1 G-GAATAAAAGATTATCAGT
1197755 GGAATA
1 GGAATA
1197761 GGATTACTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 5 0.23
19 2 0.09
20 15 0.68
ACGTcount: A:0.45, C:0.02, G:0.23, T:0.30
Consensus pattern (19 bp):
GGAATAAAAGATTATCAGT
Found at i:1197981 original size:36 final size:36
Alignment explanation
Indices: 1197910--1197982 Score: 96
Period size: 36 Copynumber: 2.0 Consensus size: 36
1197900 GTTAGAAAAT
* *
1197910 ATTTATATATTTTCTTTAAAAATTTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAATTGAAAATCATAAA
1197946 ATTTATATAATTTT-TTTAGAAAATTGAAAAT-ATAAA
1 ATTTATAT-ATTTTCTTTA-AAAATTGAAAATCATAAA
1197982 A
1 A
1197983 AGGTTTAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 18 0.55
37 15 0.45
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.47
Consensus pattern (36 bp):
ATTTATATATTTTCTTTAAAAATTGAAAATCATAAA
Found at i:1198774 original size:6 final size:6
Alignment explanation
Indices: 1198763--1198789 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
1198753 TAATTGCAAA
1198763 AAATTT AAATTT AAATTT AAATTT AAA
1 AAATTT AAATTT AAATTT AAATTT AAA
1198790 AACCCGATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (6 bp):
AAATTT
Found at i:1198939 original size:26 final size:27
Alignment explanation
Indices: 1198910--1198960 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
1198900 AAAAAGAAAA
*
1198910 AAAAAGAAAATATAAAAATA-TAAATC
1 AAAAAGAAAAAATAAAAATAGTAAATC
*
1198936 AAAAAGAAAAAATAATAATAGTAAA
1 AAAAAGAAAAAATAAAAATAGTAAA
1198961 GAAAATGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.75, C:0.02, G:0.06, T:0.18
Consensus pattern (27 bp):
AAAAAGAAAAAATAAAAATAGTAAATC
Found at i:1199414 original size:24 final size:24
Alignment explanation
Indices: 1199354--1199402 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
1199344 AAACACCTTG
1199354 AAATAAAAGGAATTAAATTTGCAA
1 AAATAAAAGGAATTAAATTTGCAA
1199378 AAATAAAAGGAATTAAATTTGCAA
1 AAATAAAAGGAATTAAATTTGCAA
1199402 A
1 A
1199403 CATAGCTGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.59, C:0.04, G:0.12, T:0.24
Consensus pattern (24 bp):
AAATAAAAGGAATTAAATTTGCAA
Found at i:1200823 original size:106 final size:106
Alignment explanation
Indices: 1200702--1202960 Score: 3771
Period size: 106 Copynumber: 21.3 Consensus size: 106
1200692 GTATTGTTTC
*
1200702 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1200767 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
1200808 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1200873 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
1200914 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAGTTGTTTTTTTTTTG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG----TTTGTTG
*
1200979 ACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
62 ACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
1201024 GAGTCCAATATTCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
*
1201089 CCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
1201130 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1201195 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
1201236 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1201301 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
1201342 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAGTTGTTTTTTTTTTG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG----TTTGTTG
*
1201407 ACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
62 ACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
1201452 GAATCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA-ATGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
*
1201516 CCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
1201557 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1201622 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
1201663 GAGCCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAT
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
*
1201728 CCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
1201769 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAA-ATGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1201833 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
1201874 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAA-ATGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
*
1201938 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
1201979 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAA-ATGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
* *
1202043 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
1202084 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAA-ATGTTCGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
*
1202148 CCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
1202189 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
* * *
1202254 CCACCGGTCCCTTCGTCATGAAGTTGAACTTACGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
1202295 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGAAAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1202360 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
1202401 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAA-ATGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
*
1202465 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
1202506 GAGT-CAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAA-ATGTTCGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
*
1202569 CCAGCGGTCCCTTCGTAGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
1202610 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAATTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
* *
1202675 CCAGCGGTCCCTTCCTCGTGAAGTTGAACTTACGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
1202716 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
*
1202781 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
1202822 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
**
1202887 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTATTGTCTTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-TG
* * *
1202929 GA-TTCAAGATCCTTCGTTGAGAAGTTGAAATT
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
1202961 TACTCTCGAG
Statistics
Matches: 2050, Mismatches: 90, Indels: 26
0.95 0.04 0.01
Matches are distributed among these distances:
104 101 0.05
105 605 0.30
106 1141 0.56
107 4 0.00
109 2 0.00
110 197 0.10
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:1202353 original size:527 final size:529
Alignment explanation
Indices: 1200702--1202966 Score: 3797
Period size: 527 Copynumber: 4.3 Consensus size: 529
1200692 GTATTGTTTC
*
1200702 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1200767 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
* * *
1200832 GTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
131 GTTGAAATTGACTCTGAAATCGAGAAGATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
* * * * * *
1200897 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGG
196 TGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAG
* * *
1200962 AAGTTGTTTTTTTTTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAG
261 AA-ATG----TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
* * * *
1201027 TCCAATATTCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGGAA-ATTGTTTATTGACAACC
321 TCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGA-TGTTTGTTGACAACC
1201091 AGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
385 AGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
1201156 TGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
450 TGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
*
1201221 AACTTGCGTTGTCTG
515 AACTTACGTTGTCTG
1201236 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
*
1201301 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
* * * * * *
1201366 GTTGAAATTGGCTCCGAAATTGGGAAGTTGTTTTTTTTTTGACAACCAGCGGTCCCTTCGTCGTG
131 GTTGAAATTGACTCTGAAATCGAGAAGATG----TTTGTTGACAACCAGCGGTCCCTTCGTCGTG
* * *
1201431 AAGTTGAACTTGCGTTGTCTTGAATCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAAT
192 AAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAAT
* * *
1201496 TGGGAAATGTTTGTTGACAACCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
257 CGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
*
1201561 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAG
322 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGATGTTTGTTGACAACCAG
* *
1201626 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGCCCAATATCCTTCGTTGTGAAGTTG
387 CAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTG
* *
1201691 AAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACATCCAGCAGTCCCTTCGTCGTGAAGTTGAA
452 AAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
*
1201756 CTTGCGTTGTCTG
517 CTTACGTTGTCTG
* * *
1201769 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAA-ATGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1201833 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
1201898 GTTGAAATTGACTCTGAAATCGAGAA-ATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
131 GTTGAAATTGACTCTGAAATCGAGAAGATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
1201962 TGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAG
196 TGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAG
* *
1202027 AAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTAGAGTCCAA
261 AAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAA
* * *
1202092 TATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAA-ATGTTCGTTGACAACCAGCAGT
326 TATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGATGTTTGTTGACAACCAGCAGT
1202156 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAAT
391 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAAT
* *
1202221 TGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCACCGGTCCCTTCGTCATGAAGTTGAACTTA
456 TGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTA
1202286 CGTTGTCTG
521 CGTTGTCTG
* *
1202295 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGAAAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1202360 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
1202425 GTTGAAATTGACTCTGAAATCGAGAA-ATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
131 GTTGAAATTGACTCTGAAATCGAGAAGATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
1202489 TGAACTTGCGTTGTCTAGAGT-CAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAG
196 TGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAG
* *
1202553 AAATGTTCGTTGACAACCAGCGGTCCCTTCGTAGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAA
261 AAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAA
** *
1202618 TATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAATTTGTTTGTTGACAACCAGCGGT
326 TATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGATGTTTGTTGACAACCAGCAGT
* * *
1202683 CCCTTCCTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAAT
391 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAAT
1202748 TGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTA
456 TGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTA
1202813 CGTTGTCTG
521 CGTTGTCTG
* *
1202822 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
** * * *
1202887 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTATTGTCTTGGA-TTCAAGATCCTTCGTTGAGA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-TGGAGTCCAATATCCTTCGTTGTGA
*
1202951 AGTTGAAATTTACTCT
130 AGTTGAAATTGACTCT
1202967 CGAGCAAATT
Statistics
Matches: 1645, Mismatches: 78, Indels: 23
0.94 0.04 0.01
Matches are distributed among these distances:
526 343 0.21
527 643 0.39
528 4 0.00
531 2 0.00
532 99 0.06
533 299 0.18
534 156 0.09
537 2 0.00
538 97 0.06
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (529 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
GTTGAAATTGACTCTGAAATCGAGAAGATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
TGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAG
AAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAA
TATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGATGTTTGTTGACAACCAGCAGT
CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAAT
TGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTA
CGTTGTCTG
Found at i:1206552 original size:6 final size:6
Alignment explanation
Indices: 1206541--1206567 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
1206531 TAATTGCAAA
1206541 AAATTT AAATTT AAATTT AAATTT AAA
1 AAATTT AAATTT AAATTT AAATTT AAA
1206568 AACCCGATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (6 bp):
AAATTT
Found at i:1206728 original size:21 final size:19
Alignment explanation
Indices: 1206698--1206740 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
1206688 AAGAAAATAT
1206698 AAAAATATAAATCAG-AAAGA
1 AAAAATAT-AAT-AGTAAAGA
1206718 AAAAATAATAATAGTAAAGA
1 AAAAAT-ATAATAGTAAAGA
1206738 AAA
1 AAA
1206741 TGAAAAGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
19 2 0.10
20 17 0.81
21 2 0.10
ACGTcount: A:0.72, C:0.02, G:0.09, T:0.16
Consensus pattern (19 bp):
AAAAATATAATAGTAAAGA
Found at i:1211660 original size:33 final size:33
Alignment explanation
Indices: 1211618--1211684 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
1211608 TACAACATAA
1211618 ACCTTAAACACAATTATGACAGGTTAAGTACAG
1 ACCTTAAACACAATTATGACAGGTTAAGTACAG
1211651 ACCTTAAACACAATTATGACAGGTTAAGTACAG
1 ACCTTAAACACAATTATGACAGGTTAAGTACAG
1211684 A
1 A
1211685 AAAATGACAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.43, C:0.18, G:0.15, T:0.24
Consensus pattern (33 bp):
ACCTTAAACACAATTATGACAGGTTAAGTACAG
Found at i:1214101 original size:16 final size:16
Alignment explanation
Indices: 1214080--1214155 Score: 107
Period size: 16 Copynumber: 4.8 Consensus size: 16
1214070 ACCCGACCTA
*
1214080 TTTTCAACTTGACATG
1 TTTTCAACATGACATG
*
1214096 TTTTCAACATGACCTG
1 TTTTCAACATGACATG
*
1214112 TTTTTAACATGACATG
1 TTTTCAACATGACATG
*
1214128 TTTTTAACATGACATG
1 TTTTCAACATGACATG
*
1214144 TTTTTAACATGA
1 TTTTCAACATGA
1214156 TCTGATATTT
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 56 1.00
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.43
Consensus pattern (16 bp):
TTTTCAACATGACATG
Found at i:1214125 original size:32 final size:32
Alignment explanation
Indices: 1214074--1214155 Score: 119
Period size: 32 Copynumber: 2.6 Consensus size: 32
1214064 AGTATTACCC
* * *
1214074 GACCTATTTTCAACTTGACATGTTTTCAACAT
1 GACCTGTTTTTAACATGACATGTTTTCAACAT
*
1214106 GACCTGTTTTTAACATGACATGTTTTTAACAT
1 GACCTGTTTTTAACATGACATGTTTTCAACAT
*
1214138 GACATGTTTTTAACATGA
1 GACCTGTTTTTAACATGA
1214156 TCTGATATTT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 45 1.00
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.41
Consensus pattern (32 bp):
GACCTGTTTTTAACATGACATGTTTTCAACAT
Found at i:1214420 original size:14 final size:14
Alignment explanation
Indices: 1214398--1214444 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
1214388 TGTAAAGGAA
*
1214398 AATTAATATAGTTT
1 AATTTATATAGTTT
1214412 AATTTATATA----
1 AATTTATATAGTTT
1214422 AA-TTATATAGTTT
1 AATTTATATAGTTT
1214435 AATTTATATA
1 AATTTATATA
1214445 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:1214431 original size:23 final size:24
Alignment explanation
Indices: 1214397--1214446 Score: 93
Period size: 23 Copynumber: 2.1 Consensus size: 24
1214387 ATGTAAAGGA
1214397 AAATTAATATAGTTTAATTTATAT
1 AAATTAATATAGTTTAATTTATAT
1214421 AAATT-ATATAGTTTAATTTATAT
1 AAATTAATATAGTTTAATTTATAT
1214444 AAA
1 AAA
1214447 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:1214646 original size:7 final size:7
Alignment explanation
Indices: 1214636--1214667 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
1214626 AATATTTATA
1214636 GTTTAGG
1 GTTTAGG
1214643 GTTTAGG
1 GTTTAGG
1214650 GTTTAGG
1 GTTTAGG
1214657 GTTTAGG
1 GTTTAGG
1214664 GTTT
1 GTTT
1214668 TTATAATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.12, C:0.00, G:0.41, T:0.47
Consensus pattern (7 bp):
GTTTAGG
Found at i:1214654 original size:21 final size:21
Alignment explanation
Indices: 1214616--1214667 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
1214606 TACATTATGA
* *
1214616 TTTAGGGTTTAATATTTATAG
1 TTTAGGGTTTAAGATTTAGAG
* * *
1214637 TTTAGGGTTTAGGGTTTAGGG
1 TTTAGGGTTTAAGATTTAGAG
1214658 TTTAGGGTTT
1 TTTAGGGTTT
1214668 TTATAATTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.19, C:0.00, G:0.31, T:0.50
Consensus pattern (21 bp):
TTTAGGGTTTAAGATTTAGAG
Found at i:1214754 original size:9 final size:9
Alignment explanation
Indices: 1214740--1214773 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
1214730 AGTAATTTAC
1214740 TTTATATAG
1 TTTATATAG
1214749 TTTATATA-
1 TTTATATAG
*
1214757 TATATATAG
1 TTTATATAG
1214766 TTTATATA
1 TTTATATA
1214774 TACTATACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (9 bp):
TTTATATAG
Found at i:1214791 original size:20 final size:18
Alignment explanation
Indices: 1214742--1214780 Score: 71
Period size: 17 Copynumber: 2.2 Consensus size: 18
1214732 TAATTTACTT
1214742 TATATAGTTTATATATA-
1 TATATAGTTTATATATAC
1214759 TATATAGTTTATATATAC
1 TATATAGTTTATATATAC
1214777 TATA
1 TATA
1214781 CATGGTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (18 bp):
TATATAGTTTATATATAC
Found at i:1214820 original size:13 final size:13
Alignment explanation
Indices: 1214804--1214830 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1214794 TACATATTCT
1214804 ATAAAATTATTTA
1 ATAAAATTATTTA
1214817 ATAAAATTATTTA
1 ATAAAATTATTTA
1214830 A
1 A
1214831 ATTATTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATAAAATTATTTA
Found at i:1215292 original size:7 final size:7
Alignment explanation
Indices: 1215280--1215347 Score: 50
Period size: 7 Copynumber: 9.9 Consensus size: 7
1215270 ACGTTGTATC
1215280 GTTTATG
1 GTTTATG
1215287 GTTTATG
1 GTTTATG
1215294 GTTTA-G
1 GTTTATG
*
1215300 TGTTCATG
1 -GTTTATG
**
1215308 GTTTAAA
1 GTTTATG
*
1215315 GTTTA-A
1 GTTTATG
1215321 GTTTATG
1 GTTTATG
* *
1215328 ATTTAGG
1 GTTTATG
*
1215335 GTTTAAG
1 GTTTATG
1215342 GTTTAT
1 GTTTAT
1215348 ATAAACTATA
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
6 7 0.15
7 40 0.83
8 1 0.02
ACGTcount: A:0.22, C:0.01, G:0.25, T:0.51
Consensus pattern (7 bp):
GTTTATG
Found at i:1215826 original size:14 final size:14
Alignment explanation
Indices: 1215807--1215851 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
1215797 TCTATTTATA
1215807 TTAGGGTTTATGGT
1 TTAGGGTTTATGGT
1215821 TTAGGGTTTA-GTGT
1 TTAGGGTTTATG-GT
* *
1215835 TTAGTGTGTATGGT
1 TTAGGGTTTATGGT
1215849 TTA
1 TTA
1215852 AAGTTTAGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 1 0.04
14 25 0.93
15 1 0.04
ACGTcount: A:0.16, C:0.00, G:0.33, T:0.51
Consensus pattern (14 bp):
TTAGGGTTTATGGT
Found at i:1215831 original size:21 final size:21
Alignment explanation
Indices: 1215811--1215881 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
1215801 TTTATATTAG
* *
1215811 GGTTTATGGTTTAGGGTTT-A
1 GGTTTAGGGTTTATGGTTTAA
* *
1215831 GTGTTTAGTGTGTATGGTTTAA
1 G-GTTTAGGGTTTATGGTTTAA
* * *
1215853 AGTTTAGAGTTTATAGTTTAA
1 GGTTTAGGGTTTATGGTTTAA
1215874 GGTTTAGG
1 GGTTTAGG
1215882 TTTTTTAAAT
Statistics
Matches: 39, Mismatches: 10, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
20 1 0.03
21 37 0.95
22 1 0.03
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.48
Consensus pattern (21 bp):
GGTTTAGGGTTTATGGTTTAA
Found at i:1218487 original size:15 final size:15
Alignment explanation
Indices: 1218467--1218510 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
1218457 TTAATATATG
1218467 ATTAAAATAATATTA
1 ATTAAAATAATATTA
*
1218482 ATTAAAATAAAATT-
1 ATTAAAATAATATTA
*
1218496 -TTAAAATTATATTA
1 ATTAAAATAATATTA
1218510 A
1 A
1218511 AACAAAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
13 11 0.46
15 13 0.54
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
ATTAAAATAATATTA
Found at i:1218775 original size:18 final size:18
Alignment explanation
Indices: 1218748--1218787 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
1218738 TGAAAAGAAA
* *
1218748 AAATGTCACATTATACAT
1 AAATGCCACATCATACAT
*
1218766 AAATGCCACATCGTACAT
1 AAATGCCACATCATACAT
1218784 AAAT
1 AAAT
1218788 ATTAATAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.45, C:0.20, G:0.07, T:0.28
Consensus pattern (18 bp):
AAATGCCACATCATACAT
Found at i:1236946 original size:21 final size:21
Alignment explanation
Indices: 1236920--1236994 Score: 69
Period size: 21 Copynumber: 3.4 Consensus size: 21
1236910 TCGGTAAAAC
*
1236920 TCTACCTAAAACATTATTTTT
1 TCTACCTAAAATATTATTTTT
* *
1236941 TCTACCGAAAATATTACTATTGGGT
1 TCTACCTAAAATATTA-T-TT--TT
*
1236966 GCTACCTAAAATATTATTTTT
1 TCTACCTAAAATATTATTTTT
*
1236987 TATACCTA
1 TCTACCTA
1236995 TTTTTCTATC
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
21 21 0.50
22 1 0.02
23 4 0.10
24 1 0.02
25 15 0.36
ACGTcount: A:0.33, C:0.17, G:0.07, T:0.43
Consensus pattern (21 bp):
TCTACCTAAAATATTATTTTT
Found at i:1244241 original size:13 final size:13
Alignment explanation
Indices: 1244223--1244266 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 13
1244213 TGGCTTGGCC
1244223 AATTGATTTGATT
1 AATTGATTTGATT
* **
1244236 AGTTGATTTGAGA
1 AATTGATTTGATT
1244249 AATTGATTTGATT
1 AATTGATTTGATT
1244262 AATTG
1 AATTG
1244267 TTTATATAGA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.48
Consensus pattern (13 bp):
AATTGATTTGATT
Found at i:1245024 original size:2 final size:2
Alignment explanation
Indices: 1245017--1245048 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1245007 TAAAATTGTC
1245017 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
1245049 TATTAAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1249648 original size:21 final size:21
Alignment explanation
Indices: 1249622--1249666 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1249612 GATTTCTGGG
* *
1249622 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
1249643 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
1249664 CAA
1 CAA
1249667 ACGACAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:1250262 original size:18 final size:18
Alignment explanation
Indices: 1250239--1250273 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
1250229 AACTAGGATT
1250239 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
1250257 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
1250274 CTAGATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:1251426 original size:149 final size:148
Alignment explanation
Indices: 1250999--1251443 Score: 821
Period size: 149 Copynumber: 3.0 Consensus size: 148
1250989 GAGTCGAGGG
1250999 TCTACGCGTTCTTCGGGAC--A--TA-ATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACATA
1 TCTACGCGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACATA
1251059 CTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATTAT
66 CTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATTAT
1251124 ATGGCACTACGGTGCAAT
131 ATGGCACTACGGTGCAAT
1251142 TCTACGCGTTCTTC-GGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACATA
1 TCTACGCGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACATA
1251206 CTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATTAT
66 CTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATTAT
1251271 ATGGCACTACGGTGCAAT
131 ATGGCACTACGGTGCAAT
1251289 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
1 TCTACGC-GTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
* *
1251354 ACTTGATCCATAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
65 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATTA
1251419 TATGGCACTACGGTGCAAT
130 TATGGCACTACGGTGCAAT
1251438 TCTACG
1 TCTACG
1251444 GGGCACTTCG
Statistics
Matches: 293, Mismatches: 2, Indels: 8
0.97 0.01 0.03
Matches are distributed among these distances:
142 4 0.01
143 14 0.05
144 1 0.00
146 2 0.01
147 128 0.44
148 7 0.02
149 137 0.47
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (148 bp):
TCTACGCGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACATA
CTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATTAT
ATGGCACTACGGTGCAAT
Found at i:1251466 original size:23 final size:23
Alignment explanation
Indices: 1251422--1251466 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1251412 ATCATTATAT
*
1251422 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
1251445 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
1251467 AGCTGTGGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:1252636 original size:21 final size:19
Alignment explanation
Indices: 1252591--1252640 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
1252581 TATCGCCACG
*
1252591 TATTTTTCTTATTTTTTCTT
1 TATTTTT-TTATTTTATCTT
1252611 TATTTTTTATATTTTATCTT
1 TATTTTTT-TATTTTATCTT
1252631 TGATTTTTTT
1 T-ATTTTTTT
1252641 TAATAAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 1 0.04
20 19 0.70
21 7 0.26
ACGTcount: A:0.14, C:0.06, G:0.02, T:0.78
Consensus pattern (19 bp):
TATTTTTTTATTTTATCTT
Found at i:1255343 original size:18 final size:18
Alignment explanation
Indices: 1255320--1255354 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
1255310 GTGTCCGAAG
1255320 CGTGAGATTCGTCTGAAA
1 CGTGAGATTCGTCTGAAA
1255338 CGTGAGATTCGTCTGAA
1 CGTGAGATTCGTCTGAA
1255355 GCAAGTTGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (18 bp):
CGTGAGATTCGTCTGAAA
Found at i:1256839 original size:8 final size:8
Alignment explanation
Indices: 1256826--1257556 Score: 631
Period size: 8 Copynumber: 95.5 Consensus size: 8
1256816 TATTTAATAA
1256826 TAATGATT
1 TAATGATT
1256834 TAATGATT
1 TAATGATT
*
1256842 TAA--CTT
1 TAATGATT
1256848 TAATGATT
1 TAATGATT
*
1256856 TAAT-A-A
1 TAATGATT
*
1256862 TAATTACTT
1 TAATGA-TT
1256871 TAATGATT
1 TAATGATT
*
1256879 TAA--CTT
1 TAATGATT
1256885 TAATGATT
1 TAATGATT
*
1256893 TAAT-A-A
1 TAATGATT
*
1256899 TAATTAGTT
1 TAATGA-TT
1256908 TAATGATT
1 TAATGATT
*
1256916 TAA--CTT
1 TAATGATT
1256922 TAATGATT
1 TAATGATT
*
1256930 TAAT-A-A
1 TAATGATT
*
1256936 TAATTACTT
1 TAATGA-TT
1256945 TAATGATT
1 TAATGATT
*
1256953 TAATTATT
1 TAATGATT
1256961 TAATGATT
1 TAATGATT
*
1256969 TAAT-A-A
1 TAATGATT
*
1256975 TAATTATTT
1 TAATGA-TT
1256984 TAATGATT
1 TAATGATT
1256992 TAATGATT
1 TAATGATT
1257000 TAATGATT
1 TAATGATT
*
1257008 TAAT-A-A
1 TAATGATT
*
1257014 TAATTACTT
1 TAATGA-TT
1257023 TAATGATT
1 TAATGATT
1257031 TAATGATT
1 TAATGATT
1257039 TAATGATT
1 TAATGATT
*
1257047 TAAT-A-A
1 TAATGATT
*
1257053 TAATTACTT
1 TAATGA-TT
1257062 TAATGATT
1 TAATGATT
1257070 TAATGATT
1 TAATGATT
1257078 TAATGATT
1 TAATGATT
1257086 TAATGATT
1 TAATGATT
1257094 TAATGATT
1 TAATGATT
1257102 TAATGATT
1 TAATGATT
1257110 TAATGATT
1 TAATGATT
*
1257118 TAAT-A-A
1 TAATGATT
*
1257124 TAATTACTT
1 TAATGA-TT
1257133 TAATGATT
1 TAATGATT
*
1257141 TAA--CTT
1 TAATGATT
1257147 TAATGATT
1 TAATGATT
*
1257155 TAAT-A-A
1 TAATGATT
*
1257161 TAATTACTT
1 TAATGA-TT
1257170 TAATGATT
1 TAATGATT
1257178 TAATGATT
1 TAATGATT
1257186 TAATGATT
1 TAATGATT
*
1257194 TAAT-A-A
1 TAATGATT
*
1257200 TAATTATTT
1 TAATGA-TT
1257209 TAATGATT
1 TAATGATT
1257217 TAATGATT
1 TAATGATT
1257225 TAATGATT
1 TAATGATT
1257233 TAATGATT
1 TAATGATT
*
1257241 TAAT-A-A
1 TAATGATT
*
1257247 TAATTACTT
1 TAATGA-TT
1257256 TAATGATT
1 TAATGATT
1257264 TAATGATT
1 TAATGATT
1257272 TAATGATT
1 TAATGATT
1257280 TAATGATT
1 TAATGATT
1257288 TAATGATT
1 TAATGATT
1257296 TAATGATT
1 TAATGATT
*
1257304 TAAT-A-A
1 TAATGATT
*
1257310 TAATTACTT
1 TAATGA-TT
1257319 TAATGATT
1 TAATGATT
1257327 TAATGATT
1 TAATGATT
1257335 TAATGATT
1 TAATGATT
1257343 TAATGATT
1 TAATGATT
1257351 TAATGATT
1 TAATGATT
1257359 TAATGATT
1 TAATGATT
*
1257367 TAAT-A-A
1 TAATGATT
*
1257373 TAATTACTT
1 TAATGA-TT
1257382 TAATGATT
1 TAATGATT
*
1257390 TAA--CTT
1 TAATGATT
1257396 TAATGATT
1 TAATGATT
*
1257404 TAAT-A-A
1 TAATGATT
*
1257410 TAATTACTT
1 TAATGA-TT
1257419 TAATGATT
1 TAATGATT
1257427 TAATGATT
1 TAATGATT
1257435 TAATGATT
1 TAATGATT
*
1257443 TAAT-A-A
1 TAATGATT
*
1257449 TAATTATTT
1 TAATGA-TT
1257458 TAATGATT
1 TAATGATT
1257466 TAATGATT
1 TAATGATT
*
1257474 TAAT-A-A
1 TAATGATT
*
1257480 TAATTACTT
1 TAATGA-TT
1257489 TAATGATT
1 TAATGATT
1257497 TAAT--TT
1 TAATGATT
*
1257503 TAATAATT
1 TAATGATT
*
1257511 TAAT-A-A
1 TAATGATT
* *
1257517 TAATTACT
1 TAATGATT
1257525 TAAT--TT
1 TAATGATT
1257531 TAATGATT
1 TAATGATT
1257539 TAAT--TT
1 TAATGATT
1257545 TAATGATT
1 TAATGATT
1257553 TAAT
1 TAAT
1257557 AATAATTACT
Statistics
Matches: 600, Mismatches: 60, Indels: 126
0.76 0.08 0.16
Matches are distributed among these distances:
6 106 0.18
7 32 0.05
8 387 0.64
9 75 0.12
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.50
Consensus pattern (8 bp):
TAATGATT
Found at i:1256874 original size:23 final size:23
Alignment explanation
Indices: 1256826--1256956 Score: 108
Period size: 23 Copynumber: 5.5 Consensus size: 23
1256816 TATTTAATAA
*
1256826 TAATGATTTAATGAT--TTAACTT
1 TAATGATTTAATAATAATT-ACTT
1256848 TAATGATTTAATAATAATTACTT
1 TAATGATTTAATAATAATTACTT
* *
1256871 TAATGATTTAACT-TTAATGA-TT
1 TAATGATTTAA-TAATAATTACTT
* * *
1256893 TAATAATAATTAGTTTAATGATTTAACTT
1 TAATGAT--TTA--ATAAT-AATT-ACTT
1256922 TAATGATTTAATAATAATTACTT
1 TAATGATTTAATAATAATTACTT
1256945 TAATGATTTAAT
1 TAATGATTTAAT
1256957 TATTTAATGA
Statistics
Matches: 87, Mismatches: 11, Indels: 21
0.73 0.09 0.18
Matches are distributed among these distances:
22 22 0.25
23 36 0.41
24 9 0.10
25 5 0.06
26 1 0.01
27 5 0.06
28 1 0.01
29 8 0.09
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.49
Consensus pattern (23 bp):
TAATGATTTAATAATAATTACTT
Found at i:1256962 original size:31 final size:30
Alignment explanation
Indices: 1256826--1257509 Score: 285
Period size: 31 Copynumber: 21.8 Consensus size: 30
1256816 TATTTAATAA
* *
1256826 TAATGATTTAATGATTTAACT-TTAATGATT
1 TAATGATTTAATTATTTAA-TAATAATGATT
* * * *
1256856 TAAT-A-ATAATTACTTTAATGAT-TTAACTT
1 TAATGATTTAATTA-TTTAATAATAATGA-TT
* * *
1256885 TAATGATTTAATAATAATTAGT-TTAATGATT
1 TAATGATTTAAT--TATTTAATAATAATGATT
* * *
1256916 TAA--CTTTAATGATTTAATAATAATTACTT
1 TAATGATTTAATTATTTAATAATAATGA-TT
* *
1256945 TAATGATTTAATTATTTAATGATTTAAT-A-A
1 TAATGATTTAATTATTTAAT-A-ATAATGATT
* * *
1256975 TAATTATTTTAATGATTTAATGATTTAATGATT
1 TAATGA-TTTAATTATTTAAT-A-ATAATGATT
* *
1257008 TAAT-A-ATAATTACTTTAATGATTTAATGATT
1 TAATGATTTAATTA-TTTAAT-A-ATAATGATT
* * *
1257039 TAATGATTTAATAATAATTACT-TTAATGATT
1 TAATGATTTAAT--TATTTAATAATAATGATT
* *
1257070 TAATGATTTAATGATTTAATGATTTAATGATT
1 TAATGATTTAATTATTTAAT-A-ATAATGATT
* *
1257102 TAATGATTTAATGATTTAATAATAATTACTT
1 TAATGATTTAATTATTTAATAATAATGA-TT
*
1257133 TAATGATTTAACTTTAATGATTTAATAATAATTACTT
1 TAATGATTTAA---T--T-ATTTAATAATAATGA-TT
* * *
1257170 TAATGATTTAATGATTTAATGATTTAAT-A-A
1 TAATGATTTAATTATTTAAT-A-ATAATGATT
* * *
1257200 TAATTATTTTAATGATTTAATGATTTAATGATT
1 TAATGA-TTTAATTATTTAAT-A-ATAATGATT
* * *
1257233 TAATGATTTAATAATAATTACT-TTAATGATT
1 TAATGATTTAAT--TATTTAATAATAATGATT
* *
1257264 TAATGATTTAATGATTTAATGATTTAATGATT
1 TAATGATTTAATTATTTAAT-A-ATAATGATT
* * *
1257296 TAATGATTTAATAATAATTACT-TTAATGATT
1 TAATGATTTAAT--TATTTAATAATAATGATT
* *
1257327 TAATGATTTAATGATTTAATGATTTAATGATT
1 TAATGATTTAATTATTTAAT-A-ATAATGATT
* * *
1257359 TAATGATTTAATAATAATTACT-TTAATGATT
1 TAATGATTTAAT--TATTTAATAATAATGATT
* *
1257390 TAA--CTTTAATGATTTAATAATAATTACTTTAATGATT
1 TAATGATTTAATTA-TT--TAAT-A--A---TAATGATT
* *
1257427 TAATGATTTAATGATTTAATAATAATTATTT
1 TAATGATTTAATTATTTAATAATAATGA-TT
* *
1257458 TAATGATTTAATGATTTAATAATAATTACTT
1 TAATGATTTAATTATTTAATAATAATGA-TT
1257489 TAATGATTTAA-T-TTTAATAAT
1 TAATGATTTAATTATTTAATAAT
1257510 TTAATAATAA
Statistics
Matches: 527, Mismatches: 65, Indels: 125
0.74 0.09 0.17
Matches are distributed among these distances:
27 6 0.01
28 14 0.03
29 54 0.10
30 33 0.06
31 227 0.43
32 91 0.17
33 24 0.05
34 21 0.04
35 3 0.01
36 4 0.01
37 40 0.08
38 2 0.00
39 8 0.02
ACGTcount: A:0.40, C:0.02, G:0.08, T:0.50
Consensus pattern (30 bp):
TAATGATTTAATTATTTAATAATAATGATT
Found at i:1256974 original size:39 final size:39
Alignment explanation
Indices: 1256817--1257567 Score: 797
Period size: 39 Copynumber: 19.5 Consensus size: 39
1256807 TCGAGTACAT
* *
1256817 ATTTAATAATAATGA-TTTAATGATTTAA--CTTTAATG
1 ATTTAATAATAATTACTTTAATGATTTAATGATTTAATG
*
1256853 ATTTAATAATAATTACTTTAATGATTTAA--CTTTAATG
1 ATTTAATAATAATTACTTTAATGATTTAATGATTTAATG
* *
1256890 ATTTAATAATAATTAGTTTAATGATTTAA--CTTTAATG
1 ATTTAATAATAATTACTTTAATGATTTAATGATTTAATG
*
1256927 ATTTAATAATAATTACTTTAATGATTTAATTATTTAATG
1 ATTTAATAATAATTACTTTAATGATTTAATGATTTAATG
*
1256966 ATTTAATAATAATTATTTTAATGATTTAATGATTTAATG
1 ATTTAATAATAATTACTTTAATGATTTAATGATTTAATG
1257005 ATTTAATAATAATTACTTTAATGATTTAATGATTTAATG
1 ATTTAATAATAATTACTTTAATGATTTAATGATTTAATG
1257044 ATTTAATAATAATTACTTTAATGATTTAATGATTTAATG
1 ATTTAATAATAATTACTTTAATGATTTAATGATTTAATG
*
1257083 A--T--T--TAATGA-TTTAATGATTTAATGATTTAATG
1 ATTTAATAATAATTACTTTAATGATTTAATGATTTAATG
*
1257115 ATTTAATAATAATTACTTTAATGATTTAA--CTTTAATG
1 ATTTAATAATAATTACTTTAATGATTTAATGATTTAATG
1257152 ATTTAATAATAATTACTTTAATGATTTAATGATTTAATG
1 ATTTAATAATAATTACTTTAATGATTTAATGATTTAATG
*
1257191 ATTTAATAATAATTATTTTAATGATTTAATGATTTAATG
1 ATTTAATAATAATTACTTTAATGATTTAATGATTTAATG
* * * *
1257230 ATTTAATGAT--TTAATAATAATTACTTTAATGATTTAATG
1 ATTTAATAATAATTACT-TTAATGA-TTTAATGATTTAATG
* * *
1257269 ATTTAATGATTTAATGA-TTTAATGATTTAATGATTTAATA
1 ATTTAAT-A-ATAATTACTTTAATGATTTAATGATTTAATG
* * *
1257309 ATAATTACT-TTAATGA-TTTAATGATTTAATGATTTAATG
1 AT--TTAATAATAATTACTTTAATGATTTAATGATTTAATG
* * * *
1257348 ATTTAATGATTTAATGA-TTTAAT-A-ATAATTACTTTAATG
1 ATTTAAT-A-ATAATTACTTTAATGATTTAATGA-TTTAATG
* * * *
1257387 ATTTAACTTTAATGATTTAATAATAATTACTTTAATGATTTAATG
1 ATTTAA---TAAT-AATTACT-TTAATGA-TTTAATGATTTAATG
* * * *
1257432 ATTTAATGAT--TTAATAATAATTATTTTAATGATTTAATG
1 ATTTAATAATAATTACT-TTAATGA-TTTAATGATTTAATG
*
1257471 ATTTAATAATAATTACTTTAATGATTTAAT--TTTAATA
1 ATTTAATAATAATTACTTTAATGATTTAATGATTTAATG
1257508 ATTTAATAATAATTACTTAATTTTAATGATTTAAT--TTTAATG
1 ATTTAATAATAATTAC-----TTTAATGATTTAATGATTTAATG
1257550 ATTTAATAATAATTACTT
1 ATTTAATAATAATTACTT
1257568 GACTTTAATG
Statistics
Matches: 634, Mismatches: 41, Indels: 79
0.84 0.05 0.10
Matches are distributed among these distances:
32 24 0.04
33 5 0.01
34 1 0.00
35 1 0.00
36 15 0.02
37 154 0.24
38 15 0.02
39 299 0.47
40 35 0.06
41 14 0.02
42 46 0.07
43 6 0.01
44 1 0.00
45 13 0.02
46 5 0.01
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (39 bp):
ATTTAATAATAATTACTTTAATGATTTAATGATTTAATG
Found at i:1256989 original size:23 final size:23
Alignment explanation
Indices: 1256883--1256995 Score: 93
Period size: 23 Copynumber: 4.6 Consensus size: 23
1256873 ATGATTTAAC
*
1256883 TTTAATGATTTAATAATAATTAG
1 TTTAATGATTTAATAATAATTAT
*
1256906 TTTAATGATTTAACTTTAATGATTTAAT
1 TTTAATGATTTAA---TAAT-AATT-AT
** * *
1256934 AATAATTACTTTAATGATTTAATTA-
1 TTTAATGA-TTTAAT-A-ATAATTAT
1256959 TTTAATGATTTAATAATAATTAT
1 TTTAATGATTTAATAATAATTAT
1256982 TTTAATGATTTAAT
1 TTTAATGATTTAAT
1256996 GATTTAATGA
Statistics
Matches: 70, Mismatches: 11, Indels: 18
0.71 0.11 0.18
Matches are distributed among these distances:
22 6 0.09
23 28 0.40
24 6 0.09
25 5 0.07
26 6 0.09
27 7 0.10
28 7 0.10
29 5 0.07
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.51
Consensus pattern (23 bp):
TTTAATGATTTAATAATAATTAT
Found at i:1257384 original size:249 final size:250
Alignment explanation
Indices: 1256826--1257567 Score: 1042
Period size: 249 Copynumber: 2.9 Consensus size: 250
1256816 TATTTAATAA
*
1256826 TAATGATTTAATGATTTAA--CTTTAATGATTTAATAATAATTACTTTAATGATTTAACTTTAAT
1 TAATGATTTAATGATTTAATGATTTAATGATTTAATAATAATTACTTTAATGATTTAACTTTAAT
* * *
1256889 GATTTAATAATAATTAGTTTAATGATTTAA--CTTTAATGATTTAATAATAATTACTTTAATGAT
66 GATTTAATAATAATTACTTTAATGATTTAATGATTTAATGATTTAATAATAATTATTTTAATGAT
* ** *
1256952 TTAATTATTTAATGATTTAATAATAATT-ATTTTAATGATTTAATGATTTAATGATTTAATAATA
131 TTAATGATTTAATGATTTAATAAT--TTAATAATAATTATTTAATGATTTAATGA--T-AT--TA
*
1257016 ATTACTTTAATGATTTAATGATTTAATGATTTAATAATAATTACTTTAATGATTTAATGATTTAA
189 ATAACTTTAATGATTTAATGATTTAATGATTTAATAATAATTAC--------TTTAATGATTTAA
1257081 TGATT
246 TGATT
1257086 TAATGATTTAATGATTTAATGATTTAATGATTTAATAATAATTACTTTAATGATTTAACTTTAAT
1 TAATGATTTAATGATTTAATGATTTAATGATTTAATAATAATTACTTTAATGATTTAACTTTAAT
1257151 GATTTAATAATAATTACTTTAATGATTTAATGATTTAATGATTTAATAATAATTATTTTAATGAT
66 GATTTAATAATAATTACTTTAATGATTTAATGATTTAATGATTTAATAATAATTATTTTAATGAT
* *
1257216 TTAATGATTTAATGATTTAATGATTTAATAATAATTACTTTAATGATTTAATGAT-TTAATGA-T
131 TTAATGATTTAATGATTTAATAATTTAATAATAATTA-TTTAATGATTTAATGATATTAATAACT
1257279 TTAATGATTTAATGATTTAATGATTTAATAATAATTACTTTAATGATTTAATGATT
195 TTAATGATTTAATGATTTAATGATTTAATAATAATTACTTTAATGATTTAATGATT
1257335 TAATGATTTAATGATTTAATGATTTAATGATTTAATAATAATTACTTTAATGATTTAACTTTAAT
1 TAATGATTTAATGATTTAATGATTTAATGATTTAATAATAATTACTTTAATGATTTAACTTTAAT
1257400 GATTTAATAATAATTACTTTAATGATTTAATGATTTAATGATTTAATAATAATTATTTTAATGAT
66 GATTTAATAATAATTACTTTAATGATTTAATGATTTAATGATTTAATAATAATTATTTTAATGAT
* * * * * *
1257465 TTAATGATTTAAT-A-ATAATTACTTTAATGAT--TTAATTTTAATAATTTAATAATAATTACTT
131 TTAATGATTTAATGATTTAA-TAATTTAATAATAATT-A-TTTAATGATTTAATGAT-ATTA-AT
*
1257526 AATTTTAATGATTTAAT--TTTAATGATTTAATAATAATTACTT
191 AACTTTAATGATTTAATGATTTAATGATTTAATAATAATTACTT
1257568 GACTTTAATG
Statistics
Matches: 451, Mismatches: 19, Indels: 35
0.89 0.04 0.07
Matches are distributed among these distances:
246 2 0.00
247 19 0.04
248 10 0.02
249 189 0.42
250 2 0.00
251 14 0.03
257 39 0.09
258 5 0.01
260 20 0.04
262 75 0.17
263 7 0.02
264 69 0.15
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (250 bp):
TAATGATTTAATGATTTAATGATTTAATGATTTAATAATAATTACTTTAATGATTTAACTTTAAT
GATTTAATAATAATTACTTTAATGATTTAATGATTTAATGATTTAATAATAATTATTTTAATGAT
TTAATGATTTAATGATTTAATAATTTAATAATAATTATTTAATGATTTAATGATATTAATAACTT
TAATGATTTAATGATTTAATGATTTAATAATAATTACTTTAATGATTTAATGATT
Found at i:1260628 original size:23 final size:23
Alignment explanation
Indices: 1260602--1260645 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
1260592 AGTTGCATGC
1260602 CCCCCACATGCAGACGTGCAGGA
1 CCCCCACATGCAGACGTGCAGGA
1260625 CCCCCACATGCAGACGTGCAG
1 CCCCCACATGCAGACGTGCAG
1260646 CCTTGCAGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.25, C:0.41, G:0.25, T:0.09
Consensus pattern (23 bp):
CCCCCACATGCAGACGTGCAGGA
Found at i:1260690 original size:22 final size:22
Alignment explanation
Indices: 1260662--1260715 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
1260652 AGGACCCAGG
1260662 ACCCGTGATTTCTCCTTGCAGA
1 ACCCGTGATTTCTCCTTGCAGA
* *
1260684 ACCCGTGCTCTCTCCTTGCAGA
1 ACCCGTGATTTCTCCTTGCAGA
1260706 ACCCGTGATT
1 ACCCGTGATT
1260716 CTCACGTCCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.17, C:0.35, G:0.19, T:0.30
Consensus pattern (22 bp):
ACCCGTGATTTCTCCTTGCAGA
Found at i:1261417 original size:27 final size:28
Alignment explanation
Indices: 1261363--1261418 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
1261353 CAATTATTAT
1261363 TTTAATATTGAATTTAAAAAAATCAAAA
1 TTTAATATTGAATTTAAAAAAATCAAAA
* *
1261391 TTTAATATT-AATTTTAAAATAATAAAAA
1 TTTAATATTGAA-TTTAAAAAAATCAAAA
1261419 CAAAAACTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.08
28 23 0.92
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (28 bp):
TTTAATATTGAATTTAAAAAAATCAAAA
Done.