Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 112 of 328
Found at i:31673349 original size:20 final size:20
Alignment explanation
Indices: 31673326--31673388 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
31673316 GAACATCTCG
31673326 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
31673346 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
31673366 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
31673386 TGT
1 TGT
31673389 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:31673453 original size:25 final size:25
Alignment explanation
Indices: 31673425--31673472 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
31673415 ATATATAAAC
* * *
31673425 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
31673450 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
31673473 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:31681074 original size:15 final size:15
Alignment explanation
Indices: 31681039--31681067 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
31681029 TTGGATCGTA
31681039 CATACTAGCATGTTG
1 CATACTAGCATGTTG
31681054 CATACTAGCATGTT
1 CATACTAGCATGTT
31681068 CTGTACTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (15 bp):
CATACTAGCATGTTG
Found at i:31683808 original size:55 final size:54
Alignment explanation
Indices: 31683677--31683809 Score: 135
Period size: 55 Copynumber: 2.4 Consensus size: 54
31683667 AGGATACCAA
* * *
31683677 GTAAAACCATGCCAAGGCATGGCATTGGTAAGCTCTACAAGGCAAGAAAATCAT
1 GTAAGACCATGCCAAGGCATGGCATTGATAAACTCTACAAGGCAAGAAAATCAT
* * * * * *
31683731 GTAAGACAATGTCAAGACATGGCATTGATAAACTACTATAAGGC-A-AAGATCCCCT
1 GTAAGACCATGCCAAGGCATGGCATTGATAAACT-CTACAAGGCAAGAAAAT--CAT
*
31683786 GTAAGACCATGCCAAGGTATGGCA
1 GTAAGACCATGCCAAGGCATGGCA
31683810 ATGGTGAGTT
Statistics
Matches: 63, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
53 4 0.06
54 29 0.46
55 30 0.48
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.20
Consensus pattern (54 bp):
GTAAGACCATGCCAAGGCATGGCATTGATAAACTCTACAAGGCAAGAAAATCAT
Found at i:31688646 original size:23 final size:23
Alignment explanation
Indices: 31688616--31688662 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
31688606 TGACGATTGT
*
31688616 TTAATGTTCAGAAATCGGATATG
1 TTAATGTTCAGAAATCAGATATG
*
31688639 TTAATGTTTAGAAATCAGATATG
1 TTAATGTTCAGAAATCAGATATG
31688662 T
1 T
31688663 GTACCAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.36, C:0.06, G:0.19, T:0.38
Consensus pattern (23 bp):
TTAATGTTCAGAAATCAGATATG
Found at i:31690167 original size:20 final size:20
Alignment explanation
Indices: 31690142--31690179 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
31690132 GTTTATTCGC
*
31690142 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
31690162 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
31690180 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:31697597 original size:40 final size:40
Alignment explanation
Indices: 31697499--31697651 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
31697489 CGAATGGTAT
* * * *
31697499 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* *
31697540 CCGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * * *
31697580 CCGGGTTAAGTCTCGAAGGCATTTGTGCGAGCTATTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * *
31697620 CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
31697652 CGCTATATCC
Statistics
Matches: 92, Mismatches: 18, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
40 67 0.73
41 25 0.27
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:31707863 original size:17 final size:18
Alignment explanation
Indices: 31707833--31707867 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
31707823 TCACATGCCT
31707833 GTATAGGCCCACACGCCC
1 GTATAGGCCCACACGCCC
*
31707851 GTAT-GGCCGACACGCCC
1 GTATAGGCCCACACGCCC
31707868 AGATTGGCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.20, C:0.43, G:0.26, T:0.11
Consensus pattern (18 bp):
GTATAGGCCCACACGCCC
Found at i:31714857 original size:38 final size:38
Alignment explanation
Indices: 31714815--31714899 Score: 118
Period size: 38 Copynumber: 2.2 Consensus size: 38
31714805 GGCTTAAAGA
31714815 CCCGCAGGCTAT-ATGCTGGAAATATATCCGGGTTAAAT
1 CCCGCAGGCT-TCATGCTGGAAATATATCCGGGTTAAAT
* * *
31714853 CCCGCAAGCTTCATGCTGGTATTATATCCGGGTTAAAT
1 CCCGCAGGCTTCATGCTGGAAATATATCCGGGTTAAAT
*
31714891 CCCGTAGGC
1 CCCGCAGGC
31714900 CTAGTACTGG
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
37 1 0.02
38 40 0.98
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.27
Consensus pattern (38 bp):
CCCGCAGGCTTCATGCTGGAAATATATCCGGGTTAAAT
Found at i:31714950 original size:40 final size:38
Alignment explanation
Indices: 31714799--31714938 Score: 113
Period size: 38 Copynumber: 3.6 Consensus size: 38
31714789 ATTTGATGTG
* * * *
31714799 TATCCAGGCTTAAAGACCCGCAGG-CTATATGCTGGAAATA
1 TATCC-GGCTTAAA-TCCCGCAGGCCTA-GTGCTGGTATTA
* * *
31714839 TATCCGGGTTAAATCCCGCAAGCTTCA-TGCTGGTATTA
1 TATCCGGCTTAAATCCCGCAGGCCT-AGTGCTGGTATTA
* * *
31714877 TATCCGGGTTAAATCCCGTAGGCCTAGTACTGGTATTA
1 TATCCGGCTTAAATCCCGCAGGCCTAGTGCTGGTATTA
*
31714915 TATCTGAGCTTAAAGTCCCGCAGG
1 TATCCG-GCTTAAA-TCCCGCAGG
31714939 TTTTGTGCTG
Statistics
Matches: 82, Mismatches: 13, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
37 1 0.01
38 53 0.65
39 14 0.17
40 14 0.17
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (38 bp):
TATCCGGCTTAAATCCCGCAGGCCTAGTGCTGGTATTA
Found at i:31716808 original size:27 final size:26
Alignment explanation
Indices: 31716746--31716857 Score: 116
Period size: 27 Copynumber: 4.2 Consensus size: 26
31716736 AGCATGGCTG
* * **
31716746 CCAGAACAGATAATATGACAGAGTAA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
31716772 CCAGATACAGATAATCGTGGTAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
31716800 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
** *
31716827 CCAGATTAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
31716854 CCAG
1 CCAG
31716858 GACGCTTCCT
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
26 6 0.08
27 53 0.73
28 14 0.19
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:31716810 original size:54 final size:54
Alignment explanation
Indices: 31716746--31716857 Score: 136
Period size: 54 Copynumber: 2.1 Consensus size: 54
31716736 AGCATGGCTG
* *
31716746 CCAGAACAGATA-ATATGACAGAGTAACCAGATACAGATAATCGTGGTAGAGCCA
1 CCAGAACAGATATATATGACAGAGCAACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * * * *
31716800 CCAGAACAGATATATGTGGCAGAGCCACCAGATTAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATATGACAGAGCAACCAGATCAGATAATCGTGGCAGAGCCA
31716854 CCAG
1 CCAG
31716858 GACGCTTCCT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
54 33 0.67
55 16 0.33
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (54 bp):
CCAGAACAGATATATATGACAGAGCAACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:31724645 original size:27 final size:26
Alignment explanation
Indices: 31724610--31724718 Score: 121
Period size: 27 Copynumber: 4.0 Consensus size: 26
31724600 AGCATGGTTG
* *
31724610 CCAGAACAGATAATGTGACAGAGACA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
31724636 CCAGATACAGATAATCATGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
31724664 CCAGAACAAATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
*
31724691 CCAGATCAGATAATTGTGGC-GTAGCCA
1 CCAGAACAGATAA-TGTGGCAG-AGCCA
31724718 C
1 C
31724719 TAGGACGCTT
Statistics
Matches: 71, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
26 7 0.10
27 48 0.68
28 16 0.23
ACGTcount: A:0.39, C:0.23, G:0.23, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:31729212 original size:123 final size:123
Alignment explanation
Indices: 31728993--31729331 Score: 597
Period size: 123 Copynumber: 2.8 Consensus size: 123
31728983 GAATTATGTG
31728993 AAATGAAATATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACCCGG
*
31729058 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
31729116 AAATGAAATATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACCCGG
31729181 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
** * * * *
31729239 AAATGAAATATGGATGTGTAATGATTATTGATTTATGTGTGCATGAGCAATTGAATGATACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACCCGG
* *
31729304 GCTAAGTCCCGAAGACATTTATGCTAGT
66 GCTAAGTCCCGAAGGCAATTATGCTAGT
31729332 AATTATATCT
Statistics
Matches: 207, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
123 207 1.00
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.33
Consensus pattern (123 bp):
AAATGAAATATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACCCGG
GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
Found at i:31729369 original size:40 final size:40
Alignment explanation
Indices: 31729300--31729488 Score: 236
Period size: 40 Copynumber: 4.7 Consensus size: 40
31729290 TGAATGATAC
* * * *
31729300 CCGGGCTAAGT-CCCGAAGACATTTATGCTAGTAATTATAT
1 CCGGGCTAA-TACCCGAAGGCATTTGTGCAAGTTATTATAT
* * * * * * *
31729340 CTGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTATAT
1 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTATTATAT
* *
31729380 CCGAGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTATTATAT
*
31729420 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTATTATAT
31729460 CCGGGCTAATACCCGAAGGCATTTGTGCA
1 CCGGGCTAATACCCGAAGGCATTTGTGCA
31729489 TTGGAAAAGT
Statistics
Matches: 130, Mismatches: 18, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
40 130 1.00
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (40 bp):
CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTATTATAT
Found at i:31747988 original size:26 final size:26
Alignment explanation
Indices: 31747904--31748039 Score: 163
Period size: 26 Copynumber: 5.3 Consensus size: 26
31747894 CTGGAGGCCT
31747904 AGCCGCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
* **
31747928 AGCCCTCTTCGGTAAACTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
*
31747953 AGCCGTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
** * *
31747979 AGCCCTTTTCGGTAAACTGAGGAATA
1 AGCCCTTTTCAATAAACTGGGGCATA
31748005 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
31748031 AGCCCTTTT
1 AGCCCTTTT
31748040 GCACTTCCTC
Statistics
Matches: 93, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
23 4 0.04
24 5 0.05
25 31 0.33
26 53 0.57
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:31748023 original size:52 final size:51
Alignment explanation
Indices: 31747904--31748039 Score: 197
Period size: 52 Copynumber: 2.7 Consensus size: 51
31747894 CTGGAGGCCT
* * *
31747904 AGCCGCTTTT-AAT-AACTGGGGCA-AAGCCCTCTTCGGTAAACTGGGGCAA
1 AGCC-CTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGAGGAAA
*
31747953 AGCCGTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGAGGAATA
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGAGGAA-A
31748005 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
31748040 GCACTTCCTC
Statistics
Matches: 78, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
48 4 0.05
49 7 0.09
50 10 0.13
51 22 0.28
52 35 0.45
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (51 bp):
AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGAGGAAA
Found at i:31748113 original size:20 final size:20
Alignment explanation
Indices: 31748088--31748163 Score: 113
Period size: 20 Copynumber: 3.9 Consensus size: 20
31748078 TTTATGAATT
*
31748088 TATCATGTGCATTTCATACA
1 TATCATGTGCATATCATACA
31748108 TATCATGTGCATATCATACA
1 TATCATGTGCATATCATACA
31748128 TATCATGTGCATATCATATCA
1 TATCATGTGCATATCATA-CA
31748149 -ATCATGT--ATATCATA
1 TATCATGTGCATATCATA
31748164 TCCCACGTAT
Statistics
Matches: 54, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
18 8 0.15
20 44 0.81
21 2 0.04
ACGTcount: A:0.34, C:0.18, G:0.09, T:0.38
Consensus pattern (20 bp):
TATCATGTGCATATCATACA
Found at i:31748120 original size:11 final size:11
Alignment explanation
Indices: 31748088--31748144 Score: 59
Period size: 11 Copynumber: 5.5 Consensus size: 11
31748078 TTTATGAATT
31748088 TATCATGTGCA
1 TATCATGTGCA
* *
31748099 TTTCA--TACA
1 TATCATGTGCA
31748108 TATCATGTGCA
1 TATCATGTGCA
*
31748119 TATCA--TACA
1 TATCATGTGCA
31748128 TATCATGTGCA
1 TATCATGTGCA
31748139 TATCAT
1 TATCAT
31748145 ATCAATCATG
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
9 15 0.42
11 21 0.58
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.39
Consensus pattern (11 bp):
TATCATGTGCA
Found at i:31748161 original size:9 final size:10
Alignment explanation
Indices: 31748088--31748162 Score: 59
Period size: 9 Copynumber: 7.6 Consensus size: 10
31748078 TTTATGAATT
31748088 TATCATGTGCA
1 TATCATGT-CA
* *
31748099 TTTCAT-ACA
1 TATCATGTCA
31748108 TATCATGTGCA
1 TATCATGT-CA
*
31748119 TATCAT-ACA
1 TATCATGTCA
31748128 TATCATGTGCA
1 TATCATGT-CA
*
31748139 TATCATATCA
1 TATCATGTCA
31748149 -ATCATGT-A
1 TATCATGTCA
31748157 TATCAT
1 TATCAT
31748163 ATCCCACGTA
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
8 1 0.02
9 26 0.51
10 2 0.04
11 22 0.43
ACGTcount: A:0.33, C:0.19, G:0.09, T:0.39
Consensus pattern (10 bp):
TATCATGTCA
Found at i:31750713 original size:145 final size:144
Alignment explanation
Indices: 31750496--31750779 Score: 385
Period size: 145 Copynumber: 2.0 Consensus size: 144
31750486 TGTTGAGGCT
* * * * *
31750496 GATGCCATGTCCCAGACATGGTTTTACACTAGCTCTCGTCTCAATGTTGATGTCATGTTCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAATGTCGATGCCATGTTCCAAAC
* * * *
31750561 ATGGTCTTACACTGGCTCTCACAAT-GTGGTCGATGCCATGTCCCAGACATGGTCTTTACACTAG
66 ATAGTCTTACACTGGCTCTCA-AATCATGGCCGAAGCCATGTCCCAGACATGGTC-TTACACTAG
**
31750625 TGCACATATCAATACC
129 CACACATATCAATACC
*
31750641 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-T-ATATTGTCGATGCCATTTTCCAA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCA-A-TGTCGATGCCATGTTCCAA
* *
31750704 ACATAGTCTTACACTGGCTCTCATATCATGGCCGAAGCCATGTCTCAGACATGGTCTTACACTAG
64 ACATAGTCTTACACTGGCTCTCAAATCATGGCCGAAGCCATGTCCCAGACATGGTCTTACACTAG
31750769 CACACATATCA
129 CACACATATCA
31750780 CTCAAATGCC
Statistics
Matches: 122, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
143 1 0.01
144 22 0.18
145 99 0.81
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (144 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAATGTCGATGCCATGTTCCAAAC
ATAGTCTTACACTGGCTCTCAAATCATGGCCGAAGCCATGTCCCAGACATGGTCTTACACTAGCA
CACATATCAATACC
Found at i:31750777 original size:48 final size:48
Alignment explanation
Indices: 31750445--31750779 Score: 261
Period size: 48 Copynumber: 7.0 Consensus size: 48
31750435 AGGGTGAATT
* * * * * * *
31750445 GCCGATGCCATATTCCAAACATGGTCTTACATTGGCTCACATGTTGA-G
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACAT-ATCATG
* * * * *
31750493 GCTGATGCCATGTCCCAGACATGGTTTTACACTAGCTCTCGTCTCAAT-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATC-ATG
** * * * *
31750541 GTTGATGTCATGTTCCAGACATGGTCTTACACTGGCTCTCACA-AT-GTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAG--CTCACATATCATG
*
31750589 GTCGATGCCATGTCCCAGACATGGTCTTTACACTAG-TGCACATATCAAT-
1 GCCGATGCCATGTCCCAGACATGGTC-TTACACTAGCT-CACATATC-ATG
* * *
31750638 ACCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATTAT-ATT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACA-TATCATG
* * * * * * *
31750686 GTCGATGCCATTTTCCAAACATAGTCTTACACTGGCTCTCATATCATG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCATG
* * *
31750734 GCCGAAGCCATGTCTCAGACATGGTCTTACACTAGCACACATATCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCA
31750780 CTCAAATGCC
Statistics
Matches: 227, Mismatches: 46, Indels: 28
0.75 0.15 0.09
Matches are distributed among these distances:
46 1 0.00
47 11 0.05
48 173 0.76
49 37 0.16
50 5 0.02
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCATG
Found at i:31755432 original size:27 final size:29
Alignment explanation
Indices: 31755394--31755447 Score: 85
Period size: 27 Copynumber: 1.9 Consensus size: 29
31755384 TATTTAGAAG
*
31755394 TTTATTGTATCCACCA-AAAA-AATATTA
1 TTTATTGCATCCACCATAAAAGAATATTA
31755421 TTTATTGCATCCACCATAAAAGAATAT
1 TTTATTGCATCCACCATAAAAGAATAT
31755448 CTTCCATCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 15 0.62
28 4 0.17
29 5 0.21
ACGTcount: A:0.43, C:0.17, G:0.06, T:0.35
Consensus pattern (29 bp):
TTTATTGCATCCACCATAAAAGAATATTA
Found at i:31763661 original size:31 final size:31
Alignment explanation
Indices: 31763613--31763729 Score: 164
Period size: 31 Copynumber: 3.8 Consensus size: 31
31763603 TCAATCTCAG
31763613 CATAT-ACTGGGCCAAAGCCTTTACATTATT
1 CATATCACTGGGCCAAAGCCTTTACATTATT
* *
31763643 CATATCACTGGGCAAAAGCCTTTTCATTATT
1 CATATCACTGGGCCAAAGCCTTTACATTATT
* * *
31763674 CATATCACTAGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCAAAGCCTTTACATTATT
**
31763705 CATATCACTGGGCTGAAGCCTTTAC
1 CATATCACTGGGCCAAAGCCTTTAC
31763730 TGTAACAATA
Statistics
Matches: 78, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
30 5 0.06
31 73 0.94
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (31 bp):
CATATCACTGGGCCAAAGCCTTTACATTATT
Found at i:31763962 original size:25 final size:26
Alignment explanation
Indices: 31763934--31764016 Score: 100
Period size: 26 Copynumber: 3.3 Consensus size: 26
31763924 CTGGAGGCCT
31763934 AGCCTCTTTT-AAT-AACTGGGGCAAA
1 AGCC-CTTTTCAATAAACTGGGGCAAA
**
31763959 AGCCCTTTTCGGTAAACTGGGGCAAA
1 AGCCCTTTTCAATAAACTGGGGCAAA
**
31763985 AGCCCTTTTCGGTAAACTGGGGC-AA
1 AGCCCTTTTCAATAAACTGGGGCAAA
31764010 AGCCCTT
1 AGCCCTT
31764017 AGCCCTTTTG
Statistics
Matches: 54, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
24 5 0.09
25 14 0.26
26 35 0.65
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCAAA
Found at i:31763977 original size:26 final size:26
Alignment explanation
Indices: 31763947--31764016 Score: 133
Period size: 26 Copynumber: 2.7 Consensus size: 26
31763937 CTCTTTTAAT
31763947 AACTGGGGCAAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAAGCCCTTTTCGGTA
31763973 AACTGGGGCAAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAAGCCCTTTTCGGTA
31763999 AACTGGGGC-AAAGCCCTT
1 AACTGGGGCAAAAGCCCTT
31764017 AGCCCTTTTG
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
25 9 0.20
26 35 0.80
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.21
Consensus pattern (26 bp):
AACTGGGGCAAAAGCCCTTTTCGGTA
Found at i:31765982 original size:2 final size:2
Alignment explanation
Indices: 31765975--31766003 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
31765965 GAGACTAGTC
31765975 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
31766004 CATGTCATGA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:31767739 original size:30 final size:30
Alignment explanation
Indices: 31767705--31767771 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
31767695 TCCTTAACTC
31767705 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * * *
31767735 AAACTTTTGCATATTTACACTTTTTCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
31767765 AAACTTT
1 AAACTTT
31767772 TGCATATTCA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.40
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:31767772 original size:30 final size:30
Alignment explanation
Indices: 31767719--31767795 Score: 127
Period size: 30 Copynumber: 2.6 Consensus size: 30
31767709 TTTGGAAAAA
* *
31767719 TTACAATTTTGCCCCTAAACTTTTGCATAT
1 TTACACTTTTTCCCCTAAACTTTTGCATAT
31767749 TTACACTTTTTCCCCTAAACTTTTGCATAT
1 TTACACTTTTTCCCCTAAACTTTTGCATAT
*
31767779 TCACACTTTTTCCCCTA
1 TTACACTTTTTCCCCTA
31767796 GGCTCGGGAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.23, C:0.29, G:0.04, T:0.44
Consensus pattern (30 bp):
TTACACTTTTTCCCCTAAACTTTTGCATAT
Found at i:31768887 original size:46 final size:46
Alignment explanation
Indices: 31768837--31769005 Score: 195
Period size: 46 Copynumber: 3.7 Consensus size: 46
31768827 TGAGCATCCA
31768837 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* * * *
31768883 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCCG
* *
31768930 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCC
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
31768975 AAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 AA-CTCGTTGAGTTGAGTCCGAGTTCACTTA
31769006 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 10, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 7 0.07
46 53 0.51
47 29 0.28
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
Found at i:31768989 original size:93 final size:93
Alignment explanation
Indices: 31768830--31769000 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
31768820 GGATGGTTGA
* *
31768830 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCGTTGAGT
31768895 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
31768923 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCCAAGCTCGTTGAG
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAA-CTCGTTGAG
31768987 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
31769001 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 4 0.05
93 70 0.95
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:31772269 original size:30 final size:30
Alignment explanation
Indices: 31772235--31772295 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
31772225 TCCTTAACTC
31772235 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
31772265 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
31772295 A
1 A
31772296 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:31780241 original size:46 final size:45
Alignment explanation
Indices: 31780191--31780361 Score: 186
Period size: 46 Copynumber: 3.7 Consensus size: 45
31780181 GGTTGAGCAT
* *
31780191 CCGAACTTGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATGC
* * *
31780237 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--GC
* * *
31780282 ATCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGTGAACGC
1 -CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATGC
*
31780329 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
31780362 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 13, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 4 0.04
46 83 0.80
47 4 0.04
49 4 0.04
50 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATGC
Found at i:31780349 original size:92 final size:93
Alignment explanation
Indices: 31780187--31780356 Score: 279
Period size: 92 Copynumber: 1.8 Consensus size: 93
31780177 GGATGGTTGA
* *
31780187 GCATCCGAACTTGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
31780252 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
31780280 GCAT-CGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGTGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
31780344 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
31780357 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
92 67 0.94
93 4 0.06
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:31780619 original size:19 final size:20
Alignment explanation
Indices: 31780584--31780621 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
31780574 ATAAGGTGGT
31780584 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
31780604 AAGAT-ATGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
31780622 TGGTGTACCA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.39, C:0.00, G:0.21, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:31781184 original size:15 final size:15
Alignment explanation
Indices: 31781164--31781194 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
31781154 ATTATGTTCG
31781164 GTAACCCTCAAGCTC
1 GTAACCCTCAAGCTC
31781179 GTAACCCTCAAGCTC
1 GTAACCCTCAAGCTC
31781194 G
1 G
31781195 ACTCCAGTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.39, G:0.16, T:0.19
Consensus pattern (15 bp):
GTAACCCTCAAGCTC
Found at i:31785150 original size:30 final size:28
Alignment explanation
Indices: 31785110--31785210 Score: 103
Period size: 28 Copynumber: 3.5 Consensus size: 28
31785100 GACAAGATTG
* * *
31785110 GCACTGAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--AATTATACA
* *
31785140 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAATTATACA
* * *
31785168 GCACTAAGTGTGCGAGCTGAATATATATA
1 GCACTAAGTGTGCGAGTTTAAT-TATACA
31785197 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
31785211 GATTCACTAT
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
28 25 0.40
29 20 0.32
30 17 0.27
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATACA
Found at i:31785174 original size:28 final size:29
Alignment explanation
Indices: 31785139--31785210 Score: 112
Period size: 29 Copynumber: 2.5 Consensus size: 29
31785129 AAAATTGTAC
*
31785139 AGCACTAAGTGTGCGAGTTTG-AT-TATAT
1 AGCACTAAGTGTGCGAG-CTGAATATATAT
31785167 AGCACTAAGTGTGCGAGCTGAATATATAT
1 AGCACTAAGTGTGCGAGCTGAATATATAT
31785196 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
31785211 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAATATATAT
Found at i:31792590 original size:30 final size:28
Alignment explanation
Indices: 31792550--31792650 Score: 103
Period size: 28 Copynumber: 3.5 Consensus size: 28
31792540 GACAAGATTG
* * *
31792550 GCACTGAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--AATTATACA
* *
31792580 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAATTATACA
* * *
31792608 GCACTAAGTGTGCGAGCTGAATATATATA
1 GCACTAAGTGTGCGAGTTTAAT-TATACA
31792637 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
31792651 GATTCACTAT
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
28 25 0.40
29 20 0.32
30 17 0.27
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATACA
Found at i:31792614 original size:28 final size:29
Alignment explanation
Indices: 31792579--31792650 Score: 112
Period size: 29 Copynumber: 2.5 Consensus size: 29
31792569 AAAATTGTAC
*
31792579 AGCACTAAGTGTGCGAGTTTG-AT-TATAT
1 AGCACTAAGTGTGCGAG-CTGAATATATAT
31792607 AGCACTAAGTGTGCGAGCTGAATATATAT
1 AGCACTAAGTGTGCGAGCTGAATATATAT
31792636 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
31792651 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAATATATAT
Found at i:31797993 original size:46 final size:46
Alignment explanation
Indices: 31797943--31798114 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
31797933 GGTTGAGCAT
31797943 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATAC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATAC
* * *
31797989 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-TA--C
* * *
31798034 ATTCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATAC
*
31798082 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
31798115 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 6 0.06
45 3 0.03
46 58 0.55
47 27 0.25
48 3 0.03
50 5 0.05
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATAC
Found at i:31798103 original size:93 final size:93
Alignment explanation
Indices: 31797939--31798109 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
31797929 GGATGGTTGA
31797939 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATACCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATACCCGAACTCGTTGAGT
31798004 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
31798032 GCATTCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATACCCGAACTCGTTGAGT
31798097 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
31798110 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATACCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:31798374 original size:19 final size:20
Alignment explanation
Indices: 31798339--31798376 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
31798329 ATAAGGTGGT
31798339 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
31798359 AAGAT-ATGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
31798377 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.39, C:0.00, G:0.21, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:31799678 original size:31 final size:31
Alignment explanation
Indices: 31799638--31799746 Score: 173
Period size: 31 Copynumber: 3.5 Consensus size: 31
31799628 CAGCATATAT
31799638 TGGGCCGAAGCCTTTACATTATTCATATCAC
1 TGGGCCGAAGCCTTTACATTATTCATATCAC
* *
31799669 TGGGGCGAAGCCTTTTCATTATTCATATCAC
1 TGGGCCGAAGCCTTTACATTATTCATATCAC
* *
31799700 TGGGCCGAAGCCTTTTCATTATTCATATCAT
1 TGGGCCGAAGCCTTTACATTATTCATATCAC
*
31799731 TGGGCCAAAGCCTTTA
1 TGGGCCGAAGCCTTTA
31799747 TTGTAACAAT
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 72 1.00
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (31 bp):
TGGGCCGAAGCCTTTACATTATTCATATCAC
Found at i:31799980 original size:25 final size:25
Alignment explanation
Indices: 31799952--31800011 Score: 77
Period size: 26 Copynumber: 2.4 Consensus size: 25
31799942 CTGGAGGCCT
31799952 AGCCTCTTTTAAT-AACTGGGGAAAA
1 AGCC-CTTTTAATAAACTGGGGAAAA
* *
31799977 AGCCCTTTTTGATAAACTGGGGCAAA
1 AGCCC-TTTTAATAAACTGGGGAAAA
31800003 AGCCCTTTT
1 AGCCCTTTT
31800012 CGGTAAACTG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 1 0.03
25 14 0.45
26 16 0.52
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (25 bp):
AGCCCTTTTAATAAACTGGGGAAAA
Found at i:31800003 original size:26 final size:26
Alignment explanation
Indices: 31799965--31800060 Score: 99
Period size: 26 Copynumber: 3.8 Consensus size: 26
31799955 CTCTTTTAAT
* *
31799965 AACTGGGGAAAAAGCCCTTTTTGATA
1 AACTGGGGCAAAAGCCCTTTTCGATA
*
31799991 AACTGGGGCAAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAAGCCCTTTTCGATA
* * *
31800017 AACTGGGGC-GAAGCCCGTTTCGGT-
1 AACTGGGGCAAAAGCCCTTTTCGATA
* *
31800041 AACTGGAGC-ATAGCCCTTTT
1 AACTGGGGCAAAAGCCCTTTT
31800061 GCACTTCCTC
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
24 16 0.26
25 13 0.21
26 32 0.52
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (26 bp):
AACTGGGGCAAAAGCCCTTTTCGATA
Found at i:31800056 original size:24 final size:25
Alignment explanation
Indices: 31800002--31800049 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
31799992 ACTGGGGCAA
* *
31800002 AAGCCCTTTTCGGTAAACTGGGGCG
1 AAGCCCGTTTCGGTAAACTGGAGCG
31800027 AAGCCCGTTTCGGT-AACTGGAGC
1 AAGCCCGTTTCGGTAAACTGGAGC
31800050 ATAGCCCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.21, C:0.25, G:0.31, T:0.23
Consensus pattern (25 bp):
AAGCCCGTTTCGGTAAACTGGAGCG
Found at i:31803562 original size:14 final size:14
Alignment explanation
Indices: 31803543--31803569 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
31803533 TAACTCAAGC
31803543 ATTAAGAACAAATA
1 ATTAAGAACAAATA
31803557 ATTAAGAACAAAT
1 ATTAAGAACAAAT
31803570 CAAGTATTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.63, C:0.07, G:0.07, T:0.22
Consensus pattern (14 bp):
ATTAAGAACAAATA
Found at i:31806063 original size:6 final size:6
Alignment explanation
Indices: 31806043--31806076 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
31806033 AAGAAAATAA
*
31806043 TAAAAT TGAAA- TAAAAT TAAAAT TAAAAT TAAAA
1 TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAA
31806077 AGATAAGAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 4 0.16
6 21 0.84
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (6 bp):
TAAAAT
Found at i:31806071 original size:12 final size:11
Alignment explanation
Indices: 31806041--31806076 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
31806031 AAAAGAAAAT
*
31806041 AATAAAATTGA
1 AATAAAATTAA
31806052 AATAAAATTAA
1 AATAAAATTAA
31806063 AATTAAAATTAA
1 AA-TAAAATTAA
31806075 AA
1 AA
31806077 AGATAAGAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 12 0.52
12 11 0.48
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (11 bp):
AATAAAATTAA
Found at i:31810451 original size:28 final size:28
Alignment explanation
Indices: 31810419--31810476 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
31810409 CAGTAACCCA
31810419 TGGTGAGGGCACCTTCTTAGTAAGTCCT
1 TGGTGAGGGCACCTTCTTAGTAAGTCCT
31810447 TGGTGAGGGCACCTTCTTAGTAAGTCCT
1 TGGTGAGGGCACCTTCTTAGTAAGTCCT
31810475 TG
1 TG
31810477 TATCTCTCCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.17, C:0.21, G:0.29, T:0.33
Consensus pattern (28 bp):
TGGTGAGGGCACCTTCTTAGTAAGTCCT
Found at i:31816279 original size:27 final size:27
Alignment explanation
Indices: 31816248--31816340 Score: 109
Period size: 27 Copynumber: 3.4 Consensus size: 27
31816238 CTGCCAGAAT
* *
31816248 AGATAATGTGACAGAGTCACCAGATAC
1 AGATAATGTGGCAGAGCCACCAGATAC
*
31816275 AGATAATCGTGGCAAAGCCACCAGA-AC
1 AGATAAT-GTGGCAGAGCCACCAGATAC
*
31816302 AGATATATGTGGCAGAGCCACCAAAT-C
1 AGATA-ATGTGGCAGAGCCACCAGATAC
31816329 AGATAATTGTGG
1 AGATAA-TGTGG
31816341 TGTAGCCACC
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
26 1 0.02
27 40 0.70
28 16 0.28
ACGTcount: A:0.39, C:0.19, G:0.24, T:0.18
Consensus pattern (27 bp):
AGATAATGTGGCAGAGCCACCAGATAC
Found at i:31818808 original size:20 final size:19
Alignment explanation
Indices: 31818783--31818822 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
31818773 GTAGAAATTA
31818783 TTATTCCCAGAAAATAGAAT
1 TTATTCCCAGAAAATA-AAT
**
31818803 TTATTCTTAGAAAATAAAT
1 TTATTCCCAGAAAATAAAT
31818822 T
1 T
31818823 CTCACTTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.45, C:0.10, G:0.07, T:0.38
Consensus pattern (19 bp):
TTATTCCCAGAAAATAAAT
Found at i:31821240 original size:24 final size:22
Alignment explanation
Indices: 31821201--31821249 Score: 53
Period size: 24 Copynumber: 2.1 Consensus size: 22
31821191 CTAACTTTTA
*
31821201 TAATAGTATAATTTTACCATTT
1 TAATAGTATAATTTTACAATTT
* *
31821223 TAATAGTCTATATCTTTATAATTT
1 TAATAGTATA-AT-TTTACAATTT
31821247 TAA
1 TAA
31821250 AAGATTAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 9 0.41
23 2 0.09
24 11 0.50
ACGTcount: A:0.37, C:0.08, G:0.04, T:0.51
Consensus pattern (22 bp):
TAATAGTATAATTTTACAATTT
Found at i:31838361 original size:22 final size:22
Alignment explanation
Indices: 31838314--31838363 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
31838304 TAATAACAAC
* *
31838314 AAAATAGTAGCAACATAATAGT
1 AAAATAGTAGCAAAATAAGAGT
*
31838336 AAAATGGTAGCAAAATAGAGAG-
1 AAAATAGTAGCAAAATA-AGAGT
31838358 AAAATA
1 AAAATA
31838364 ACAAGAAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 20 0.87
23 3 0.13
ACGTcount: A:0.58, C:0.06, G:0.18, T:0.18
Consensus pattern (22 bp):
AAAATAGTAGCAAAATAAGAGT
Found at i:31839191 original size:3 final size:3
Alignment explanation
Indices: 31839183--31839231 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
31839173 AGTAGGTGAA
31839183 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
31839231 A
1 A
31839232 GTTGAACTAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:31844810 original size:25 final size:25
Alignment explanation
Indices: 31844738--31844818 Score: 101
Period size: 25 Copynumber: 3.2 Consensus size: 25
31844728 TCTCATTCTT
* * *
31844738 ATTTTACCCTCAATAAAATTTTAACA
1 ATTTTACCCT-AGTAAAATTTTGACG
31844764 ATTTTACCCCTAGTAAAA-TTTGACG
1 ATTTTA-CCCTAGTAAAATTTTGACG
*
31844789 ATTTTACCCTAGTAAAATTTTGATG
1 ATTTTACCCTAGTAAAATTTTGACG
31844814 ATTTT
1 ATTTT
31844819 GCCATTGGTA
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
24 11 0.22
25 22 0.45
26 12 0.24
27 4 0.08
ACGTcount: A:0.35, C:0.16, G:0.07, T:0.42
Consensus pattern (25 bp):
ATTTTACCCTAGTAAAATTTTGACG
Found at i:31850259 original size:29 final size:29
Alignment explanation
Indices: 31850217--31850275 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
31850207 CTTGATTGAA
*
31850217 TCTTAGATTCCATGAGTGGGACTCTTGCT
1 TCTTAGATTCCATGAGTGGGACACTTGCT
31850246 TCTTAGATTCCATGAGTGGGACACTTGCT
1 TCTTAGATTCCATGAGTGGGACACTTGCT
31850275 T
1 T
31850276 AACTCCATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.19, C:0.20, G:0.24, T:0.37
Consensus pattern (29 bp):
TCTTAGATTCCATGAGTGGGACACTTGCT
Found at i:31850282 original size:25 final size:27
Alignment explanation
Indices: 31850217--31850283 Score: 75
Period size: 29 Copynumber: 2.5 Consensus size: 27
31850207 CTTGATTGAA
* *
31850217 TCTTAGATTCCATGAGTGGGACTCTTG
1 TCTTAGACTCCATGAGTGGGACACTTG
*
31850244 CTTCTTAGATTCCATGAGTGGGACACTTG
1 --TCTTAGACTCCATGAGTGGGACACTTG
31850273 -CTTA-ACTCCAT
1 TCTTAGACTCCAT
31850284 ATATGGATCT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
25 6 0.17
26 4 0.11
29 26 0.72
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (27 bp):
TCTTAGACTCCATGAGTGGGACACTTG
Found at i:31853099 original size:4 final size:4
Alignment explanation
Indices: 31853086--31853125 Score: 50
Period size: 4 Copynumber: 10.5 Consensus size: 4
31853076 GTCACCTTAT
31853086 TTTC -TTC TTTC TTT- TTTC TTT- TTTC TTTC TTTTC TTTC TT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC -TTTC TTTC TT
31853126 AGTTTTGTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
3 9 0.28
4 19 0.59
5 4 0.12
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (4 bp):
TTTC
Found at i:31853104 original size:14 final size:14
Alignment explanation
Indices: 31853085--31853125 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
31853075 CGTCACCTTA
31853085 TTTTCTTCTTTCTT
1 TTTTCTTCTTTCTT
*
31853099 TTTTCTTTTTTCTT
1 TTTTCTTCTTTCTT
*
31853113 TCTT-TTCTTTCTT
1 TTTTCTTCTTTCTT
31853126 AGTTTTGTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
13 8 0.33
14 16 0.67
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTTCTTCTTTCTT
Found at i:31853131 original size:22 final size:19
Alignment explanation
Indices: 31853085--31853125 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 19
31853075 CGTCACCTTA
31853085 TTTTCTTCTTTC-TTTTTTC
1 TTTT-TTCTTTCTTTTTTTC
31853104 TTTTTTCTTTCTTTTCTTTC
1 TTTTTTCTTTCTTTT-TTTC
31853124 TT
1 TT
31853126 AGTTTTGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 7 0.35
20 6 0.30
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTTTTCTTTCTTTTTTTC
Found at i:31858127 original size:47 final size:47
Alignment explanation
Indices: 31858076--31858643 Score: 969
Period size: 47 Copynumber: 12.1 Consensus size: 47
31858066 GATTCTATGA
* *
31858076 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCAAATATGTGATAAGGCCGAATGGCCAATGT
31858123 GATGAATGTGAACATGCAAATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCAAATATGTGATAAGGCCGAATGGCCAATGT
*
31858170 GATGAATATGAACATGCAAATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCAAATATGTGATAAGGCCGAATGGCCAATGT
31858217 GATGAATGTGAACATGC--ATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCAAATATGTGATAAGGCCGAATGGCCAATGT
*
31858262 GATGAATGTGAACCTGCAAATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCAAATATGTGATAAGGCCGAATGGCCAATGT
* *
31858309 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCAAATATGTGATAAGGCCGAATGGCCAATGT
31858356 GATGAATGTGAACATGCAAATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCAAATATGTGATAAGGCCGAATGGCCAATGT
*
31858403 GATGAATGTGAACATGCAAATATGTGATAAGGTCGAATGGCCAATGT
1 GATGAATGTGAACATGCAAATATGTGATAAGGCCGAATGGCCAATGT
* *
31858450 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCAAATATGTGATAAGGCCGAATGGCCAATGT
* * *
31858497 GATGAATGTGAACATGCATATGTGTGATAAGGCTGAATGGCCAATGT
1 GATGAATGTGAACATGCAAATATGTGATAAGGCCGAATGGCCAATGT
*
31858544 GATGAATGTGAACTTGCAAATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCAAATATGTGATAAGGCCGAATGGCCAATGT
* **
31858591 GATGAATGTGAACATGCATATATGTGATAAGGTAGAATGGCCAATGT
1 GATGAATGTGAACATGCAAATATGTGATAAGGCCGAATGGCCAATGT
*
31858638 AATGAA
1 GATGAA
31858644 CGTGGAAGTG
Statistics
Matches: 495, Mismatches: 24, Indels: 4
0.95 0.05 0.01
Matches are distributed among these distances:
45 44 0.09
47 451 0.91
ACGTcount: A:0.35, C:0.12, G:0.28, T:0.25
Consensus pattern (47 bp):
GATGAATGTGAACATGCAAATATGTGATAAGGCCGAATGGCCAATGT
Found at i:31858533 original size:25 final size:25
Alignment explanation
Indices: 31858458--31858533 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
31858448 GTGATGAATG
31858458 TGAACATGCATATGTGTGATAAGGC
1 TGAACATGCATATGTGTGATAAGGC
* *
31858483 CG-A-ATGGCCA-A--TGTGATGAATG-
1 TGAACAT-G-CATATGTGTGAT-AAGGC
31858505 TGAACATGCATATGTGTGATAAGGC
1 TGAACATGCATATGTGTGATAAGGC
31858530 TGAA
1 TGAA
31858534 TGGCCAATGT
Statistics
Matches: 38, Mismatches: 4, Indels: 18
0.63 0.07 0.30
Matches are distributed among these distances:
22 9 0.24
23 8 0.21
24 8 0.21
25 13 0.34
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (25 bp):
TGAACATGCATATGTGTGATAAGGC
Found at i:31860185 original size:40 final size:40
Alignment explanation
Indices: 31860128--31860642 Score: 764
Period size: 40 Copynumber: 12.9 Consensus size: 40
31860118 CGAGAGTTAA
* *
31860128 ATATCCGGGCTAGGTCCCGAAGAGCATTCGTGCTAGTGAT
1 ATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGAT
* *
31860168 ATATCCGGGCTAAGTCCCGAAGAGCATTCGAGCTGGTGTT
1 ATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGAT
* *
31860208 ATATCCGGGCTAGGTCCCGAAGAGCATTCGTGCTAGTGAT
1 ATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGAT
* *
31860248 ATATCCGGGCTAAGTCCCGAAGAGCATTCGAGCTGGTGTT
1 ATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGAT
* * *
31860288 ATATCCGGGCTAGGTCCCGAAGAGCATTCGAGCTGGTGTT
1 ATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGAT
* * *
31860328 ATATCCGGGCTAGGTCCCGAAGAGCATTCGAGCTGGTGTT
1 ATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGAT
*
31860368 ATATCCGGGCTAGGTCCCGAAGAGCATTCGTGCTGGTGAT
1 ATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGAT
* * *
31860408 ATATTCGGGCTAAGTCCCGAAGAGCGTTCGTGCTAGTGAT
1 ATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGAT
* *
31860448 ATATTCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGAT
1 ATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGAT
* *
31860488 ATATTCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGAT
1 ATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGAT
31860528 ATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGAT
1 ATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGAT
* * *
31860568 ATATTCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTAAT
1 ATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGAT
* *
31860608 ATATCTGGGCTAA-ACCTCGAAG-GCATTCGTGCTGG
1 ATATCCGGGCTAAGTCC-CGAAGAGCATTCGTGCTGG
31860643 AATTATAAGG
Statistics
Matches: 445, Mismatches: 29, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
39 14 0.03
40 431 0.97
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGAT
Found at i:31860708 original size:28 final size:28
Alignment explanation
Indices: 31860677--31860746 Score: 77
Period size: 29 Copynumber: 2.5 Consensus size: 28
31860667 GCTCTTCAAC
*
31860677 TGAGCACTATGTGCGCCAGATCAGTAAT
1 TGAGCACTATGTGAGCCAGATCAGTAAT
* * **
31860705 TGAGGCACTATGTGAGCGAGTTCTTTAAT
1 TGA-GCACTATGTGAGCCAGATCAGTAAT
*
31860734 CGAGCACTATGTG
1 TGAGCACTATGTG
31860747 TGCGAAATCA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
28 13 0.37
29 22 0.63
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.29
Consensus pattern (28 bp):
TGAGCACTATGTGAGCCAGATCAGTAAT
Found at i:31864886 original size:25 final size:25
Alignment explanation
Indices: 31864811--31864886 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
31864801 GTGATGAATG
31864811 TGAACATGCATATGTGTGATAAGGC
1 TGAACATGCATATGTGTGATAAGGC
* *
31864836 CG-A-ATGGCCA-A--TGTGATGAATG-
1 TGAACAT-G-CATATGTGTGAT-AAGGC
31864858 TGAACATGCATATGTGTGATAAGGC
1 TGAACATGCATATGTGTGATAAGGC
31864883 TGAA
1 TGAA
31864887 TGGCCAATGT
Statistics
Matches: 38, Mismatches: 4, Indels: 18
0.63 0.07 0.30
Matches are distributed among these distances:
22 9 0.24
23 8 0.21
24 8 0.21
25 13 0.34
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (25 bp):
TGAACATGCATATGTGTGATAAGGC
Found at i:31865011 original size:139 final size:139
Alignment explanation
Indices: 31864478--31864996 Score: 894
Period size: 139 Copynumber: 3.7 Consensus size: 139
31864468 GATTCTATGA
* * *
31864478 GATGAATATGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
1 GATGAATGTGAACATGCAAATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
* *
31864543 AATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGATAAGACCGAAT
66 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGATAAGGCCGAAT
31864608 GGCCAATGT
131 GGCCAATGT
*
31864617 GATGAATGTGAACATGCAAATATGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAACATGCA
1 GATGAATGTGAACATGCAAATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
*
31864682 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGATAAGGCCGAAT
66 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGATAAGGCCGAAT
31864747 GGCCAATGT
131 GGCCAATGT
*
31864756 GATGAATGTGAACATGCAAATATGTGATAAGGCCGAATAGCCAATGTGATGAATGTGAACATGCA
1 GATGAATGTGAACATGCAAATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
* *
31864821 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCTGA
66 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATA--TGTGATAAGGCCGA
31864886 ATGGCCAATGT
129 ATGGCCAATGT
*
31864897 GATGAATGTGAACTTGCAAATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
1 GATGAATGTGAACATGCAAATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
***
31864962 TATATGTGATAAGGTAAAATGGCCAATGTGATGAA
66 TATATGTGATAAGGCCGAATGGCCAATGTGATGAA
31864997 CGTGGAAGTG
Statistics
Matches: 362, Mismatches: 16, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
139 244 0.67
141 118 0.33
ACGTcount: A:0.35, C:0.12, G:0.28, T:0.25
Consensus pattern (139 bp):
GATGAATGTGAACATGCAAATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGATAAGGCCGAAT
GGCCAATGT
Found at i:31865016 original size:47 final size:47
Alignment explanation
Indices: 31864478--31864996 Score: 857
Period size: 47 Copynumber: 11.1 Consensus size: 47
31864468 GATTCTATGA
* *
31864478 GATGAATATGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
*
31864525 GATGAATGTGAACATGCAAATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
*
31864572 GATGAATGTGAACATGC--ATATGTGATAAGACCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* *
31864617 GATGAATGTGAACATGCAAATATGTGATAAGGCCAAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
*
31864664 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
31864711 GATGAATGTGAACATGC--ATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* *
31864756 GATGAATGTGAACATGCAAATATGTGATAAGGCCGAATAGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
*
31864803 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* *
31864850 GATGAATGTGAACATGCATATGTGTGATAAGGCTGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* *
31864897 GATGAATGTGAACTTGCAAATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
***
31864944 GATGAATGTGAACATGCATATATGTGATAAGGTAAAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
31864991 GATGAA
1 GATGAA
31864997 CGTGGAAGTG
Statistics
Matches: 444, Mismatches: 24, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
45 88 0.20
47 356 0.80
ACGTcount: A:0.35, C:0.12, G:0.28, T:0.25
Consensus pattern (47 bp):
GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
Found at i:31867849 original size:21 final size:22
Alignment explanation
Indices: 31867800--31867849 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
31867790 AGATATCATC
*
31867800 TTTCATTTTTTCTTTTCCAATT
1 TTTCATTTTCTCTTTTCCAATT
* *
31867822 TAGTCATTTTCT-TTTTCTAATT
1 T-TTCATTTTCTCTTTTCCAATT
31867844 TTTCAT
1 TTTCAT
31867850 GGATGAATCA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
21 4 0.17
22 11 0.48
23 8 0.35
ACGTcount: A:0.16, C:0.16, G:0.02, T:0.66
Consensus pattern (22 bp):
TTTCATTTTCTCTTTTCCAATT
Found at i:31870173 original size:20 final size:20
Alignment explanation
Indices: 31870136--31870173 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
31870126 CATTTTCGAA
*
31870136 TTATAAAAAACATGAAAAAC
1 TTATAAAAAACATAAAAAAC
31870156 TTAT-AAAAACTATAAAAA
1 TTATAAAAAAC-ATAAAAA
31870174 TTATTAAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.66, C:0.08, G:0.03, T:0.24
Consensus pattern (20 bp):
TTATAAAAAACATAAAAAAC
Found at i:31870181 original size:19 final size:19
Alignment explanation
Indices: 31870134--31870198 Score: 57
Period size: 19 Copynumber: 3.4 Consensus size: 19
31870124 TTCATTTTCG
*
31870134 AATTATAAAAAAC-ATGAAA
1 AATTATTAAAAACTAT-AAA
31870153 AACTTA-TAAAAACTATAAA
1 AA-TTATTAAAAACTATAAA
31870172 AATTATT--AAACTATATAA
1 AATTATTAAAAACTATA-AA
31870190 TAATTATTA
1 -AATTATTA
31870199 TAAATTAACT
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
17 8 0.21
18 5 0.13
19 21 0.54
20 5 0.13
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.32
Consensus pattern (19 bp):
AATTATTAAAAACTATAAA
Found at i:31870691 original size:19 final size:20
Alignment explanation
Indices: 31870667--31870711 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
31870657 TGGTTTTAAT
*
31870667 TAATTTCTGATAAT-TCTTA
1 TAATTTCTAATAATCTCTTA
* *
31870686 TAATTTTTAATAATCTTTTA
1 TAATTTCTAATAATCTCTTA
31870706 TAATTT
1 TAATTT
31870712 TATAATATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.58
Consensus pattern (20 bp):
TAATTTCTAATAATCTCTTA
Found at i:31870698 original size:10 final size:10
Alignment explanation
Indices: 31870660--31870724 Score: 55
Period size: 10 Copynumber: 6.5 Consensus size: 10
31870650 AATATTATGG
31870660 TTTTAATTAAT
1 TTTTAA-TAAT
* *
31870671 TTCTGATAAT
1 TTTTAATAAT
*
31870681 TCTT-ATAAT
1 TTTTAATAAT
31870690 TTTTAATAAT
1 TTTTAATAAT
31870700 CTTTT-ATAAT
1 -TTTTAATAAT
31870710 TTTATAAT-AT
1 TTT-TAATAAT
31870720 TTTTA
1 TTTTA
31870725 TGTTTTTATA
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
9 13 0.29
10 22 0.49
11 10 0.22
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.60
Consensus pattern (10 bp):
TTTTAATAAT
Found at i:31870723 original size:19 final size:21
Alignment explanation
Indices: 31870683--31870736 Score: 69
Period size: 19 Copynumber: 2.7 Consensus size: 21
31870673 CTGATAATTC
31870683 TTATAATTTT-TAATAATCTT
1 TTATAATTTTATAATAATCTT
31870703 TTATAATTTTATAAT-AT-TT
1 TTATAATTTTATAATAATCTT
**
31870722 TTATGTTTTTATAAT
1 TTATAATTTTATAAT
31870737 TTTAGAATGT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
19 15 0.48
20 12 0.39
21 4 0.13
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (21 bp):
TTATAATTTTATAATAATCTT
Found at i:31870769 original size:16 final size:17
Alignment explanation
Indices: 31870748--31870780 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
31870738 TTAGAATGTA
31870748 TCTAGA-CAAATGAATG
1 TCTAGATCAAATGAATG
31870764 TCTAGATTCAAATGAAT
1 TCTAGA-TCAAATGAAT
31870781 CTAAACGATC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (17 bp):
TCTAGATCAAATGAATG
Found at i:31870927 original size:32 final size:32
Alignment explanation
Indices: 31870891--31870952 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
31870881 TAACGTGGAG
* **
31870891 CTATCACGTCAGCCTTCGATGATGACATGAAA
1 CTATCACGTCAACAGTCGATGATGACATGAAA
*
31870923 CTATCACGTCAACAGTCGGTGATGACATGA
1 CTATCACGTCAACAGTCGATGATGACATGA
31870953 TATTGCCACA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (32 bp):
CTATCACGTCAACAGTCGATGATGACATGAAA
Found at i:31871452 original size:20 final size:20
Alignment explanation
Indices: 31871367--31871443 Score: 73
Period size: 20 Copynumber: 3.6 Consensus size: 20
31871357 ATTGTACTAG
* *
31871367 AATTTTTAACAACATACCAA
1 AATTTGTAACAAAATACCAA
* * *
31871387 TATTTCTAACATGAAACATATCAA
1 AATTTGTAAC---AAA-ATACCAA
31871411 AATTTGTAACAAAATACCAA
1 AATTTGTAACAAAATACCAA
31871431 AATTTGTAACAAA
1 AATTTGTAACAAA
31871444 TATTGAAAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
20 27 0.59
21 3 0.07
23 2 0.04
24 14 0.30
ACGTcount: A:0.51, C:0.16, G:0.04, T:0.30
Consensus pattern (20 bp):
AATTTGTAACAAAATACCAA
Found at i:31871551 original size:20 final size:20
Alignment explanation
Indices: 31871526--31871573 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
31871516 ATAAACTTTT
*
31871526 CAAAATTTCTAATAAAATAC
1 CAAAATTTCTAACAAAATAC
*
31871546 CAAAATTTGTAACAAAATAC
1 CAAAATTTCTAACAAAATAC
*
31871566 TAAAATTT
1 CAAAATTT
31871574 TTGACGGAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.54, C:0.12, G:0.02, T:0.31
Consensus pattern (20 bp):
CAAAATTTCTAACAAAATAC
Found at i:31871632 original size:19 final size:19
Alignment explanation
Indices: 31871610--31871664 Score: 56
Period size: 23 Copynumber: 2.7 Consensus size: 19
31871600 CTTCCATGCG
31871610 AAATTTTGGTATCCATCAT
1 AAATTTTGGTATCCATCAT
*
31871629 AAATTTTAGTATCTATCCATCAT
1 AAATTTT-G---GTATCCATCAT
*
31871652 AAATTTTAGTATC
1 AAATTTTGGTATC
31871665 TATTAAAGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 8
0.73 0.08 0.20
Matches are distributed among these distances:
19 11 0.38
20 1 0.03
23 17 0.59
ACGTcount: A:0.35, C:0.15, G:0.07, T:0.44
Consensus pattern (19 bp):
AAATTTTGGTATCCATCAT
Found at i:31871645 original size:23 final size:23
Alignment explanation
Indices: 31871619--31871667 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
31871609 GAAATTTTGG
31871619 TATCCATCATAAATTTTAGTATC
1 TATCCATCATAAATTTTAGTATC
31871642 TATCCATCATAAATTTTAGTATC
1 TATCCATCATAAATTTTAGTATC
31871665 TAT
1 TAT
31871668 TAAAGATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.35, C:0.16, G:0.04, T:0.45
Consensus pattern (23 bp):
TATCCATCATAAATTTTAGTATC
Found at i:31872707 original size:16 final size:17
Alignment explanation
Indices: 31872688--31872719 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
31872678 TAGAATTAAA
31872688 TTAAA-TTAAATAAATT
1 TTAAATTTAAATAAATT
31872704 TTAAATTTAAATAAAT
1 TTAAATTTAAATAAAT
31872720 ATAAAATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TTAAATTTAAATAAATT
Found at i:31872726 original size:17 final size:17
Alignment explanation
Indices: 31872693--31872726 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
31872683 TTAAATTAAA
* *
31872693 TTAAATAAATTTTAAAT
1 TTAAATAAATATAAAAT
31872710 TTAAATAAATATAAAAT
1 TTAAATAAATATAAAAT
31872727 ATATTAATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TTAAATAAATATAAAAT
Found at i:31879750 original size:42 final size:42
Alignment explanation
Indices: 31879600--31879757 Score: 138
Period size: 42 Copynumber: 3.7 Consensus size: 42
31879590 AGGTCGTACA
* * * * *
31879600 ATGCCATATCCCAGATATGTTCTTACATGTAATTTTATATCG
1 ATGCCATGTCCCAGATATGGTCTTACACGTAATATCATATCG
* * * *
31879642 ATGCCAATAG-CCCAGCTATGGACTTACACGAAATTTCATATCG
1 ATGCC-AT-GTCCCAGATATGGTCTTACACGTAATATCATATCG
* * * *
31879685 ATGCCATGTCCAAGACATAGTCTTACACGTAATATCATATTG
1 ATGCCATGTCCCAGATATGGTCTTACACGTAATATCATATCG
** * *
31879727 ATGCTTTTTCCCAGATATGGTCTTATACGTA
1 ATGCCATGTCCCAGATATGGTCTTACACGTA
31879758 TTCTTATCTT
Statistics
Matches: 91, Mismatches: 22, Indels: 6
0.76 0.18 0.05
Matches are distributed among these distances:
41 1 0.01
42 56 0.62
43 34 0.37
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.34
Consensus pattern (42 bp):
ATGCCATGTCCCAGATATGGTCTTACACGTAATATCATATCG
Found at i:31884647 original size:16 final size:16
Alignment explanation
Indices: 31884628--31884658 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
31884618 AATATTATTA
31884628 TATTATTAGATTAGTT
1 TATTATTAGATTAGTT
*
31884644 TATTATTTGATTAGT
1 TATTATTAGATTAGT
31884659 AGTTTTAATA
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:0.29, C:0.00, G:0.13, T:0.58
Consensus pattern (16 bp):
TATTATTAGATTAGTT
Found at i:31885460 original size:17 final size:17
Alignment explanation
Indices: 31885438--31885474 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
31885428 GCTCATAATT
31885438 GAAAAGAAATAAAACAA
1 GAAAAGAAATAAAACAA
31885455 GAAAAGAAATAAAACAA
1 GAAAAGAAATAAAACAA
31885472 GAA
1 GAA
31885475 TATTAGATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.76, C:0.05, G:0.14, T:0.05
Consensus pattern (17 bp):
GAAAAGAAATAAAACAA
Found at i:31894124 original size:33 final size:33
Alignment explanation
Indices: 31894081--31894144 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
31894071 CATTTCCAAG
* **
31894081 TGGTACACACAAAGTATACCTTTCCTTTTCATA
1 TGGTACACACAAAATATACCTAACCTTTTCATA
*
31894114 TGGTATACACAAAATATACCTAACCTTTTCA
1 TGGTACACACAAAATATACCTAACCTTTTCA
31894145 AGTGTACACA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.34, C:0.23, G:0.08, T:0.34
Consensus pattern (33 bp):
TGGTACACACAAAATATACCTAACCTTTTCATA
Found at i:31899943 original size:30 final size:30
Alignment explanation
Indices: 31899907--31899984 Score: 104
Period size: 30 Copynumber: 2.6 Consensus size: 30
31899897 ATTCCACATC
* * *
31899907 GGCTGGCCACACTGTCATGGGATCCCCA-T
1 GGCTGGCCACACGGCCATGGGATCCCCACA
31899936 GGACTGGCCACACGGCCATGGGATCCCCACA
1 GG-CTGGCCACACGGCCATGGGATCCCCACA
*
31899967 GGCTGGCCACATGGCCAT
1 GGCTGGCCACACGGCCAT
31899985 ATCCCAAGCC
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
29 2 0.05
30 39 0.91
31 2 0.05
ACGTcount: A:0.19, C:0.36, G:0.29, T:0.15
Consensus pattern (30 bp):
GGCTGGCCACACGGCCATGGGATCCCCACA
Found at i:31900586 original size:2 final size:2
Alignment explanation
Indices: 31900579--31900612 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
31900569 AGAATCAGCA
31900579 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
31900613 TTGTGGTGAG
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:31903300 original size:26 final size:26
Alignment explanation
Indices: 31903226--31903301 Score: 64
Period size: 26 Copynumber: 2.9 Consensus size: 26
31903216 TCTCATCCTT
* **
31903226 ATTTTACCCCTAAAAAAATTTTGACG
1 ATTTTACCCTTACTAAAATTTTGACG
* *
31903252 ATTTTATCCTTACTAACAA-TTTGATG
1 ATTTTACCCTTACTAA-AATTTTGACG
* **
31903278 ATTTTGCCCTTGGTAAAATTTTGA
1 ATTTTACCCTTACTAAAATTTTGA
31903302 GAAAATAAGT
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
25 2 0.05
26 35 0.90
27 2 0.05
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.42
Consensus pattern (26 bp):
ATTTTACCCTTACTAAAATTTTGACG
Found at i:31926041 original size:13 final size:13
Alignment explanation
Indices: 31926023--31926052 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
31926013 TGTTCTAAGT
31926023 AATGTGTTTTATA
1 AATGTGTTTTATA
31926036 AATGTGTTTTATA
1 AATGTGTTTTATA
31926049 AATG
1 AATG
31926053 GTTGTAATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (13 bp):
AATGTGTTTTATA
Found at i:31932391 original size:46 final size:47
Alignment explanation
Indices: 31932244--31932504 Score: 209
Period size: 46 Copynumber: 5.6 Consensus size: 47
31932234 TTATTTGTGT
* * * *
31932244 GCCAGTGTAAGA-CATGTCCGAGATATGCATTGGCCACATTATGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCACATTATGAGA
*
31932290 GCCAGTATAAGACCATGTCTGGGACATGGCATCGG---CATTGA-GACGA
1 GCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCACATT-ATGA-GA
*
31932336 GTGCTAGTGTAAGA-CATGTCTGGGACATGCATCGGCCACATTATGAGA
1 --GCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCACATTATGAGA
* * * * * *
31932384 GCCAGTGTAAGA-CATGTCTAGGACATGCATTGGCTA-A-GA-GTTGT
1 GCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCACATTATG-AGA
* * * * ** *
31932428 GCTAGTATAAGACCATGTCTGGGACATGGCATCGACCTCGATGGTGATA
1 GCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCAC-ATTATGAGA
31932477 GCCAGTGTAAGACCATGTCTGGGACATG
1 GCCAGTGTAAGACCATGTCTGGGACATG
31932505 ACATGGCAAC
Statistics
Matches: 171, Mismatches: 27, Indels: 32
0.74 0.12 0.14
Matches are distributed among these distances:
43 1 0.01
44 12 0.07
45 20 0.12
46 59 0.35
47 25 0.15
48 21 0.12
49 32 0.19
50 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (47 bp):
GCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCACATTATGAGA
Found at i:31934268 original size:130 final size:132
Alignment explanation
Indices: 31934029--31934294 Score: 464
Period size: 130 Copynumber: 2.0 Consensus size: 132
31934019 CCAGTAGAGA
*
31934029 GCGAGCCCGTGAGTATGGGCCAAGGTGGAGGGGCTAGCGAAGCCTACCTCCAAATGATGGATGCT
1 GCGAGCCCGTGAGTATGGGCCAAGGCGGAGGGGCTAGCGAA--CTACCTCCAAATGATGGATGCT
*
31934094 TGGTATTCGGAGTTTGTACGTGCGAACCCAAACAGTCCACCTCCCCCACCTCCTCCGATTCCTCA
64 TGGTATTCGGAGTTTGTACGTGCGAACCCAAACAGTCCAACTCCCCCACCTCCTCCGATTCCTCA
31934159 GTAT
129 GTAT
* *
31934163 GCGAGCCCGTGAGTATGGGCTAAGGCGGAGGGGTTAGCG-A-TACCTCCAAATGATGGATGCTTG
1 GCGAGCCCGTGAGTATGGGCCAAGGCGGAGGGGCTAGCGAACTACCTCCAAATGATGGATGCTTG
31934226 GTATTCGGAGTTTGTACGTGCGAACCCAAACAGTCCAACTCCCCCACCTCCTCCGATTCCTCAGT
66 GTATTCGGAGTTTGTACGTGCGAACCCAAACAGTCCAACTCCCCCACCTCCTCCGATTCCTCAGT
31934291 AT
131 AT
31934293 GC
1 GC
31934295 CCCGGTAGCT
Statistics
Matches: 128, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
130 91 0.71
133 1 0.01
134 36 0.28
ACGTcount: A:0.22, C:0.29, G:0.27, T:0.22
Consensus pattern (132 bp):
GCGAGCCCGTGAGTATGGGCCAAGGCGGAGGGGCTAGCGAACTACCTCCAAATGATGGATGCTTG
GTATTCGGAGTTTGTACGTGCGAACCCAAACAGTCCAACTCCCCCACCTCCTCCGATTCCTCAGT
AT
Found at i:31938817 original size:3 final size:3
Alignment explanation
Indices: 31938809--31938845 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
31938799 GGGTAAATAG
31938809 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
31938846 GAGGTTATAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:31938942 original size:17 final size:18
Alignment explanation
Indices: 31938920--31938954 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
31938910 CCGATTACGA
*
31938920 AAAAGGACAAA-TTGCAT
1 AAAAGGAAAAAGTTGCAT
31938937 AAAAGGAAAAAGTTGCAT
1 AAAAGGAAAAAGTTGCAT
31938955 TTTAGTACCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.54, C:0.09, G:0.20, T:0.17
Consensus pattern (18 bp):
AAAAGGAAAAAGTTGCAT
Found at i:31940132 original size:46 final size:47
Alignment explanation
Indices: 31939970--31940290 Score: 225
Period size: 46 Copynumber: 6.7 Consensus size: 47
31939960 TTATTTGTGT
* * * *
31939970 GCCAGTGTAAGACACGTCTTGGACAT-GCATCGGCCATATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCGACCACATTATGAGA
* *
31940016 GCCAGTGTAAGAACATGTCTGGGACATGGCAAT--A--GCATTGA-GACAAGT
1 GCCAGTGTAAG-ACATGTCTGGGACATGGC-ATCGACCACATT-ATG---AGA
* *
31940064 GCTAGTGTAAGACATGTTTGGGACAT-GCATCGACCACATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCGACCACATTATGAGA
* * * *
31940110 GCCAGTGTAAGACATGTCTGGGACAT-GCATC-AGCTA-A-GA-GTTGT
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCGA-CCACATTATG-AGA
* * * *
31940154 GCTAGTATAAGACCATGTCTGGGACATGGCATCAACACGCATATATTCGAGA
1 GCCAGTGTAAGA-CATGTCTGGGACATGGCATCGAC-CACAT-TA-T-GAGA
* * * *
31940206 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCTCGATGATGATA
1 GCCAGTGTAAGA-CATGTCTGGGACATGGCATCGACCAC-ATTATGAGA
*
31940255 GCCAGTGTAAGACCATGTCTAGGACATGGCATCGAC
1 GCCAGTGTAAGA-CATGTCTGGGACATGGCATCGAC
31940291 AACTTATCCC
Statistics
Matches: 220, Mismatches: 30, Indels: 47
0.74 0.10 0.16
Matches are distributed among these distances:
43 1 0.00
44 12 0.05
45 22 0.10
46 53 0.24
47 29 0.13
48 16 0.07
49 44 0.20
50 2 0.01
51 3 0.01
52 37 0.17
53 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (47 bp):
GCCAGTGTAAGACATGTCTGGGACATGGCATCGACCACATTATGAGA
Found at i:31946458 original size:17 final size:17
Alignment explanation
Indices: 31946436--31946470 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
31946426 CACTACTTCC
31946436 GAGAACAGACCTGGTGG
1 GAGAACAGACCTGGTGG
31946453 GAGAACAGACCTGGTGG
1 GAGAACAGACCTGGTGG
31946470 G
1 G
31946471 TGATCATGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.17, G:0.43, T:0.11
Consensus pattern (17 bp):
GAGAACAGACCTGGTGG
Found at i:31949388 original size:38 final size:38
Alignment explanation
Indices: 31949344--31949615 Score: 382
Period size: 38 Copynumber: 7.1 Consensus size: 38
31949334 GATGTTTATT
* *
31949344 CGGGTTAAATCCCGCAGGCTTCATGCTGGTATTATTTC
1 CGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC
* * *
31949382 CAGGTTAAATCCCACAGGCTTCGTGTTGGTATTATATC
1 CGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC
* **
31949420 CGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAAAATATC
1 CGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTATTATATC
31949460 CGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC
1 CGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC
* *
31949498 CGGGTTAAATCCCGCAGGCTTCGTGTTGGTAATATATC
1 CGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC
* *
31949536 CGAGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATT
1 CGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC
* * * *
31949574 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATT
1 CGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC
31949612 CGGG
1 CGGG
31949616 CCTTCGTGCC
Statistics
Matches: 208, Mismatches: 24, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
38 170 0.82
39 10 0.05
40 28 0.13
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.31
Consensus pattern (38 bp):
CGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC
Found at i:31949685 original size:43 final size:43
Alignment explanation
Indices: 31949608--31949689 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 43
31949598 GCTGGTATTA
* * **
31949608 TATTCGGGCCTTCGTGCCTAGTAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGATGTG
31949651 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGA
1 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGA
31949690 AATGATATGA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.12, C:0.24, G:0.34, T:0.29
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGATGTG
Found at i:31951199 original size:21 final size:21
Alignment explanation
Indices: 31951173--31951212 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
31951163 AAGTAGACTG
31951173 TTTAAAGAA-AAATAACAATAA
1 TTTAAA-AATAAATAACAATAA
*
31951194 TTTAAAAATGAATAACAAT
1 TTTAAAAATAAATAACAAT
31951213 GCTACATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (21 bp):
TTTAAAAATAAATAACAATAA
Found at i:31967759 original size:46 final size:46
Alignment explanation
Indices: 31967706--31967878 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
31967696 TGGTTGAGCA
31967706 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
31967752 TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
31967797 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
31967845 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
31967879 GGGGGGGTTA
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 60 0.57
47 28 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:31967862 original size:93 final size:93
Alignment explanation
Indices: 31967703--31967873 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
31967693 GGATGGTTGA
* * *
31967703 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
31967768 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
31967796 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
31967861 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
31967874 ACTTAGGGGG
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:31969717 original size:46 final size:44
Alignment explanation
Indices: 31969552--31969817 Score: 187
Period size: 46 Copynumber: 5.8 Consensus size: 44
31969542 CCATCTGTGT
* ** * *
31969552 CGATGCCATGTCCCAGACAGGTCTTACACTAACACATGTAACCG-TGC
1 CGATG-CATGTCCCAGACATGTCTTACACTGGCACATCT---CGAGGC
* * *
31969599 CGATGTATGTCCCAGACATGTCTTACACTAGCACATCCCGTA-GC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCACATCTCG-AGGC
* * * * *
31969643 TGACGCATGTCCTAGACATGTATGACACTGGCTAACATCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGC--ACATCTCGAGGC
* * * *
31969689 CGATGCATGTCCCAGACATGTCTTACACTAGCACTTGTCTCAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCAC--ATCTCGAGGC
* * * *
31969735 CAATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATTATGTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCACATC--T-CGAGGC
*
31969783 CAATGCATGTCCCAGACATGTCTTACACTGGCACA
1 CGATGCATGTCCCAGACATGTCTTACACTGGCACA
31969818 CATATCTCAT
Statistics
Matches: 176, Mismatches: 30, Indels: 26
0.76 0.13 0.11
Matches are distributed among these distances:
43 2 0.01
44 29 0.16
45 3 0.02
46 88 0.50
47 34 0.19
48 20 0.11
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (44 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCACATCTCGAGGC
Found at i:31969753 original size:47 final size:46
Alignment explanation
Indices: 31969686--31969816 Score: 158
Period size: 47 Copynumber: 2.8 Consensus size: 46
31969676 AACATCTCGA
* * **
31969686 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCACTTGTCTCA-AT
1 GGCCAATGCATGTCCCAGACATGTCTTACACTGGCACTCAT-T-ATAT
* *
31969733 -GCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATTATGT
1 GGCCAATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATTATAT
31969780 GGCCAATGCATGTCCCAGACATGTCTTACACTGGCAC
1 GGCCAATGCATGTCCCAGACATGTCTTACACTGGCAC
31969817 ACATATCTCA
Statistics
Matches: 73, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
46 21 0.29
47 30 0.41
48 22 0.30
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.27
Consensus pattern (46 bp):
GGCCAATGCATGTCCCAGACATGTCTTACACTGGCACTCATTATAT
Found at i:31974520 original size:34 final size:33
Alignment explanation
Indices: 31974482--31974562 Score: 108
Period size: 34 Copynumber: 2.4 Consensus size: 33
31974472 TTAGCCCCTT
* *
31974482 TTTCAGTAGCAGTAACTGTCTGGGCCTGAGCCCA
1 TTTCAGTA-CAGTAACAGTCTGGGCCTCAGCCCA
**
31974516 TTTCAGTATCAGTGGCAGTCTGGGCCTCAGCCCA
1 TTTCAGTA-CAGTAACAGTCTGGGCCTCAGCCCA
31974550 TTTCAGTACAGTA
1 TTTCAGTACAGTA
31974563 TGCAAACCAG
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
33 4 0.10
34 37 0.90
ACGTcount: A:0.21, C:0.26, G:0.25, T:0.28
Consensus pattern (33 bp):
TTTCAGTACAGTAACAGTCTGGGCCTCAGCCCA
Found at i:31985663 original size:16 final size:16
Alignment explanation
Indices: 31985642--31985677 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
31985632 TCAACCCACT
31985642 TTTTTGACTTTTCAGC
1 TTTTTGACTTTTCAGC
31985658 TTTTTGACTTTTCAGC
1 TTTTTGACTTTTCAGC
31985674 TTTT
1 TTTT
31985678 CAGCCTTTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.11, C:0.17, G:0.11, T:0.61
Consensus pattern (16 bp):
TTTTTGACTTTTCAGC
Found at i:31988222 original size:45 final size:45
Alignment explanation
Indices: 31988173--31988343 Score: 206
Period size: 45 Copynumber: 3.8 Consensus size: 45
31988163 TGGTTGAGCA
31988173 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAATG
* * *
31988218 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA-T--G
* *
31988263 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-AATG
*
31988311 -CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
31988344 GGGGCGGGTT
Statistics
Matches: 108, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 6 0.06
43 1 0.01
44 2 0.02
45 61 0.56
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAATG
Found at i:31988327 original size:92 final size:92
Alignment explanation
Indices: 31988170--31988338 Score: 295
Period size: 92 Copynumber: 1.8 Consensus size: 92
31988160 GGATGGTTGA
*
31988170 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAATGTCCGAACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACGTCCGAACTCGTTGAGTT
31988235 GAGTCCGAGTTCGTGAGATGTAACTAG
66 GAGTCCGAGTTCGTGAGATGTAACTAG
* *
31988262 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG-CCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-AACGTCCGAACTCGTTGAGT
31988326 TGAGTCCGAGTTC
65 TGAGTCCGAGTTC
31988339 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 70 0.96
93 3 0.04
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACGTCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:31988605 original size:19 final size:20
Alignment explanation
Indices: 31988568--31988605 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
31988558 ATAAGGTGGT
31988568 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
31988588 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
31988606 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:31995594 original size:46 final size:46
Alignment explanation
Indices: 31995544--31995716 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
31995534 TGGTTGAGCA
*
31995544 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
31995590 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
31995637 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
31995683 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
31995717 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:31995700 original size:93 final size:93
Alignment explanation
Indices: 31995541--31995711 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
31995531 GGATGGTTGA
* *
31995541 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
31995606 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
31995634 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
31995699 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
31995712 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:31995978 original size:19 final size:20
Alignment explanation
Indices: 31995941--31995978 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
31995931 ATAAGGTGGT
31995941 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
31995961 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
31995979 TACCATGCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:32000776 original size:12 final size:12
Alignment explanation
Indices: 32000759--32000791 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
32000749 TGGCCCGCCC
32000759 ATATTAATTTTT
1 ATATTAATTTTT
32000771 ATATT-ATTTTT
1 ATATTAATTTTT
32000782 ATA-TAATTTT
1 ATATTAATTTT
32000792 AAAAAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:32000956 original size:29 final size:30
Alignment explanation
Indices: 32000914--32000975 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
32000904 ACTTAACAAG
*
32000914 CAAATGTCTCT-AAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAAAAAAATTAA
*
32000943 CAAATGTCTTTAAAATAATAAAAAAATTAA
1 CAAATGTCTCTAAAATAATAAAAAAATTAA
32000973 CAA
1 CAA
32000976 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.58, C:0.11, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAAAAAAATTAA
Found at i:32002002 original size:108 final size:108
Alignment explanation
Indices: 32001813--32002032 Score: 440
Period size: 108 Copynumber: 2.0 Consensus size: 108
32001803 ATGTTTTGAT
32001813 AGTTAATTAATTAAAAATGACTAAAAGATGTAAAATTTAATCACTATTTGACTAAATGGGTAATT
1 AGTTAATTAATTAAAAATGACTAAAAGATGTAAAATTTAATCACTATTTGACTAAATGGGTAATT
32001878 GATAAAGGAAAAGGGACTTAAATGGTAATTAAACCATGGTCAA
66 GATAAAGGAAAAGGGACTTAAATGGTAATTAAACCATGGTCAA
32001921 AGTTAATTAATTAAAAATGACTAAAAGATGTAAAATTTAATCACTATTTGACTAAATGGGTAATT
1 AGTTAATTAATTAAAAATGACTAAAAGATGTAAAATTTAATCACTATTTGACTAAATGGGTAATT
32001986 GATAAAGGAAAAGGGACTTAAATGGTAATTAAACCATGGTCAA
66 GATAAAGGAAAAGGGACTTAAATGGTAATTAAACCATGGTCAA
32002029 AGTT
1 AGTT
32002033 TCCAAGCGGT
Statistics
Matches: 112, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
108 112 1.00
ACGTcount: A:0.46, C:0.07, G:0.17, T:0.30
Consensus pattern (108 bp):
AGTTAATTAATTAAAAATGACTAAAAGATGTAAAATTTAATCACTATTTGACTAAATGGGTAATT
GATAAAGGAAAAGGGACTTAAATGGTAATTAAACCATGGTCAA
Found at i:32003252 original size:21 final size:20
Alignment explanation
Indices: 32003228--32003357 Score: 91
Period size: 21 Copynumber: 6.2 Consensus size: 20
32003218 TTTACTTTTA
*
32003228 GTTTAGCTCTCACGAGCTTCT
1 GTTTAGCTCT-ATGAGCTTCT
* * *
32003249 GTTTAACTCATATGAGTTTCC
1 GTTTAGCTC-TATGAGCTTCT
* *
32003270 GTTAAGCTCTATTGAGTTTCT
1 GTTTAGCTCTA-TGAGCTTCT
* * *
32003291 GTTCAACTCTTATGAGTTTCT
1 GTTTAGCTC-TATGAGCTTCT
* *
32003312 GTTCAGCTCTTCTGAGCTTCT
1 GTTTAGCTC-TATGAGCTTCT
32003333 GTTTTA-CTCTTATGAGCTTCT
1 G-TTTAGCTC-TATGAGCTTCT
32003354 GTTT
1 GTTT
32003358 CAACTTATAT
Statistics
Matches: 91, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
20 5 0.05
21 80 0.88
22 6 0.07
ACGTcount: A:0.16, C:0.21, G:0.17, T:0.46
Consensus pattern (20 bp):
GTTTAGCTCTATGAGCTTCT
Found at i:32003354 original size:42 final size:42
Alignment explanation
Indices: 32003241--32003356 Score: 153
Period size: 42 Copynumber: 2.8 Consensus size: 42
32003231 TAGCTCTCAC
* *
32003241 GAGCTTCTGTTTAACTCATATGAGTTTCCGTTAAGCTCTATT
1 GAGCTTCTGTTTAACTCTTATGAGTTTCTGTTAAGCTCTATT
* * *
32003283 GAGTTTCTGTTCAACTCTTATGAGTTTCTGTTCAGCTCT-TCT
1 GAGCTTCTGTTTAACTCTTATGAGTTTCTGTTAAGCTCTAT-T
* *
32003325 GAGCTTCTGTTTTACTCTTATGAGCTTCTGTT
1 GAGCTTCTGTTTAACTCTTATGAGTTTCTGTT
32003357 TCAACTTATA
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
41 1 0.02
42 63 0.98
ACGTcount: A:0.16, C:0.20, G:0.17, T:0.47
Consensus pattern (42 bp):
GAGCTTCTGTTTAACTCTTATGAGTTTCTGTTAAGCTCTATT
Found at i:32003409 original size:64 final size:63
Alignment explanation
Indices: 32003282--32003410 Score: 147
Period size: 64 Copynumber: 2.0 Consensus size: 63
32003272 TAAGCTCTAT
* * ** *
32003282 TGAGTTTCTGTTCAACTCTTATGAGTTTCTGTTCAGCTCTTCTGAGCTTCTGTTTTACTCTTA
1 TGAGCTTCTGTTCAACTCTTATGAGTTTCAGTTCAGCTCTTCTGAGCTTCTGTTCAACCCTTA
*
32003345 TGAGCTTCTGTTTCAACT-TATATGAGTTTCAGTTCAGCTTTTAC-GAGC-TCATGTTCAACCCT
1 TGAGCTTCTG-TTCAACTCT-TATGAGTTTCAGTTCAGCTCTT-CTGAGCTTC-TGTTCAACCCT
32003407 TA
62 TA
32003409 TG
1 TG
32003411 GGTTTCTATT
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
63 12 0.21
64 43 0.77
65 1 0.02
ACGTcount: A:0.18, C:0.21, G:0.16, T:0.45
Consensus pattern (63 bp):
TGAGCTTCTGTTCAACTCTTATGAGTTTCAGTTCAGCTCTTCTGAGCTTCTGTTCAACCCTTA
Found at i:32003426 original size:106 final size:104
Alignment explanation
Indices: 32003241--32003443 Score: 252
Period size: 106 Copynumber: 1.9 Consensus size: 104
32003231 TAGCTCTCAC
* * *
32003241 GAGCTTCTGTTTAACTCATATGAGTTTCCGTTAAGCTCTATTGAGTTTCTGTTCAACTCTTATGA
1 GAGCTTCTGTTTAACTCATATGAGTTTCAGTTAAGCTCTATTGAGTCTCTGTTCAACCCTTATGA
*
32003306 GTTTCTGTTCAGCTCTTC-TGAGCTTCTGTTTTACTCTTAT
66 GTTTCTATTCAGCTC-TCATGAGCTTCT-TTTTACTCTTAT
* *
32003346 GAGCTTCTGTTTCAACTTATATGAGTTTCAGTTCAGCT-T-TTACGAG-CTCATGTTCAACCCTT
1 GAGCTTCTGTTT-AACTCATATGAGTTTCAGTTAAGCTCTATT--GAGTCTC-TGTTCAACCCTT
* *
32003408 ATGGGTTTCTATTTAGCTCTCATGAGCTTCTTTTTA
62 ATGAGTTTCTATTCAGCTCTCATGAGCTTCTTTTTA
32003444 GCCTTCGGGC
Statistics
Matches: 85, Mismatches: 8, Indels: 10
0.83 0.08 0.10
Matches are distributed among these distances:
104 2 0.02
105 22 0.26
106 61 0.72
ACGTcount: A:0.18, C:0.20, G:0.16, T:0.45
Consensus pattern (104 bp):
GAGCTTCTGTTTAACTCATATGAGTTTCAGTTAAGCTCTATTGAGTCTCTGTTCAACCCTTATGA
GTTTCTATTCAGCTCTCATGAGCTTCTTTTTACTCTTAT
Found at i:32007470 original size:43 final size:44
Alignment explanation
Indices: 32007423--32007523 Score: 118
Period size: 44 Copynumber: 2.3 Consensus size: 44
32007413 ACTAAACTTT
* * *
32007423 AAGCCCGATATCA-T-TTCACCGGCATTATAGCCTGCTAGGCTCG
1 AAGCCCGATATCATTATTCACCAGC-TTAAAGCCTGCTAGGCTCA
*
32007466 AAGCCCGATAAT-ATTATTCACCAGCTTAAAGCTTGCTAGGCTCA
1 AAGCCCGAT-ATCATTATTCACCAGCTTAAAGCCTGCTAGGCTCA
32007510 AAGCCCGAATATCA
1 AAGCCCG-ATATCA
32007524 CCATTATAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
43 10 0.20
44 28 0.57
45 11 0.22
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.25
Consensus pattern (44 bp):
AAGCCCGATATCATTATTCACCAGCTTAAAGCCTGCTAGGCTCA
Done.