Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold193
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: 3104049
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.32
Warning! 172765 characters in sequence are not A, C, G, or T
File 3 of 18
Found at i:356340 original size:29 final size:30
Alignment explanation
Indices: 356288--356360 Score: 121
Period size: 29 Copynumber: 2.5 Consensus size: 30
356278 TTTTACAATT
*
356288 TGTATCGATACATTCTGGGTTTTACCCAGA
1 TGTATCGATACATTCTAGGTTTTACCCAGA
*
356318 TGTATCTATACATTCTAGG-TTTACCCAGA
1 TGTATCGATACATTCTAGGTTTTACCCAGA
356347 TGTATCGATACATT
1 TGTATCGATACATT
356361 TTGCAATGTA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 23 0.57
30 17 0.43
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.38
Consensus pattern (30 bp):
TGTATCGATACATTCTAGGTTTTACCCAGA
Found at i:358850 original size:51 final size:51
Alignment explanation
Indices: 358785--358904 Score: 186
Period size: 51 Copynumber: 2.4 Consensus size: 51
358775 TTATTTCCAA
* *
358785 AGGGATACTCCAACCTCGGTTTTATTTCTAAAACATCAATTTTCCACAATC
1 AGGGATACTCCAACCCCGGTTTTATTTCCAAAACATCAATTTTCCACAATC
* *
358836 AGGGATACTCCAACCCCTGTTTTATTTCCAAAACATCAATTTTCCACCATC
1 AGGGATACTCCAACCCCGGTTTTATTTCCAAAACATCAATTTTCCACAATC
* *
358887 GGGGATACTCTAACCCCG
1 AGGGATACTCCAACCCCG
358905 TTATTTCCAA
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.30
Consensus pattern (51 bp):
AGGGATACTCCAACCCCGGTTTTATTTCCAAAACATCAATTTTCCACAATC
Found at i:358963 original size:130 final size:129
Alignment explanation
Indices: 358722--359246 Score: 556
Period size: 130 Copynumber: 4.0 Consensus size: 129
358712 TTTTCATTCA
* * * *
358722 TGTTCTTATTTTCAAAACACCAATTTTTTACAATCGGGGATACTCCAACCCCATTATTTCCAAAG
1 TGTT-TTATTTCCAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCC-AAG
* ** *
358787 GGATACTCCAACCTCGGTTTTATTTCTAAAACATCAATTTTCCACAATCAGGGATACTCCAACCC
64 GGATACTCCAACCCCAATTTTATTTCTAAAACATCAATTTTTCACAATCAGGGATACTCCAACCC
358852 C
129 C
* * *
358853 TGTTTTATTTCCAAAACATCAATTTTCCACCATCGGGGATACTCTAACCCCGTTATTTCCAAGGA
1 TGTTTTATTTCCAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCAAGG-
** **
358918 GATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATC-GGAGATACTCCAACTT
65 GATACTCCAACCCCAATTTTATTTCTAAAACATCAATTTTTCACAATCAGG-GATACTCCAACCC
358982 C
129 C
* * *
358983 -GATTTTATTTCCAAAACATCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCTGAGG
1 TG-TTTTATTTCCAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTC-CAAG
* * * ** * *
359047 GGATACTCCAACCCCAACTTTATTTCCAAAATATTGATTTCTCACAATCGGGGATACTCCAACCC
64 GGATACTCCAACCCCAATTTTATTTCTAAAACATCAATTTTTCACAATCAGGGATACTCCAACCC
359112 C
129 C
* ** * * * * * ***
359113 AGCCTTATTTCTAAAGCATCGATTTTTCACAATTGAGGATACTCCAACCCCCGTTATTTTTGAGG
1 TGTTTTATTTCCAAAACATCAATTTTTCACAATCGGGGATACTCCAA-CCCCGTTATTTCCAAGG
* * * * *
359178 GCATACTCAAACCCCAATTTTATTT-TCAAAATACCGA-TTTTCTATAATCAGGGATACTCCAA-
65 G-ATACTCCAACCCCAATTTTATTTCT-AAAACATCAATTTTTC-ACAATCAGGGATACTCCAAC
359240 CCC
127 CCC
359243 TGTT
1 TGTT
359247 ATTTTCGAGG
Statistics
Matches: 334, Mismatches: 50, Indels: 21
0.82 0.12 0.05
Matches are distributed among these distances:
129 7 0.02
130 260 0.78
131 67 0.20
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.33
Consensus pattern (129 bp):
TGTTTTATTTCCAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCAAGGG
ATACTCCAACCCCAATTTTATTTCTAAAACATCAATTTTTCACAATCAGGGATACTCCAACCCC
Found at i:358975 original size:51 final size:51
Alignment explanation
Indices: 358915--359034 Score: 186
Period size: 51 Copynumber: 2.4 Consensus size: 51
358905 TTATTTCCAA
* *
358915 GGAGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATC
1 GGAGATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTTCACAATC
** *
358966 GGAGATACTCCAACTTCGATTTTATTTCCAAAACATCAATTTTTCATAATC
1 GGAGATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTTCACAATC
*
359017 GGGGATACTCCAACCCCG
1 GGAGATACTCCAACCCCG
359035 TTATTTCTGA
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.32
Consensus pattern (51 bp):
GGAGATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTTCACAATC
Found at i:359106 original size:51 final size:51
Alignment explanation
Indices: 359045--359163 Score: 157
Period size: 51 Copynumber: 2.3 Consensus size: 51
359035 TTATTTCTGA
* * *
359045 GGGGATACTCCAACCCCAACTTTATTTCCAAAATATTGATTTCTCACAATC
1 GGGGATACTCCAACCCCAACCTTATTTCCAAAACATCGATTTCTCACAATC
* * * * *
359096 GGGGATACTCCAACCCCAGCCTTATTTCTAAAGCATCGATTTTTCACAATT
1 GGGGATACTCCAACCCCAACCTTATTTCCAAAACATCGATTTCTCACAATC
*
359147 GAGGATACTCCAACCCC
1 GGGGATACTCCAACCCC
359164 CGTTATTTTT
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.29
Consensus pattern (51 bp):
GGGGATACTCCAACCCCAACCTTATTTCCAAAACATCGATTTCTCACAATC
Found at i:359270 original size:79 final size:79
Alignment explanation
Indices: 359149--359396 Score: 372
Period size: 79 Copynumber: 3.1 Consensus size: 79
359139 TCACAATTGA
* * * * *
359149 GGATACTCCAACCCCCGTTATTTTTGAGGGCATACTCAAACCCCAATTTTATTTTCAAAATACCG
1 GGATACTCCAA-CCCTGTTATTTTCGAGGGGATACTCCAACCCCAATTTTATTTTTAAAATACCG
359214 ATTTTCTATAATCAG
65 ATTTTCTATAATCAG
*
359229 GGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAACCCCAATTTTATTTTTAAAATACTGA
1 GGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAACCCCAATTTTATTTTTAAAATACCGA
359294 TTTTCTATAATCAG
66 TTTTCTATAATCAG
* * *
359308 GGATACTCCAACCCTGTTA-TTTCTGAGGGGATACTTCAACCCCAGTTTTATTTTTAAAACACCG
1 GGATACTCCAACCCTGTTATTTTC-GAGGGGATACTCCAACCCCAATTTTATTTTTAAAATACCG
* *
359372 ATTTTCCATAATCGG
65 ATTTTCTATAATCAG
359387 GGATACTCCA
1 GGATACTCCA
359397 GCCCCGTTGT
Statistics
Matches: 155, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
78 4 0.03
79 140 0.90
80 11 0.07
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (79 bp):
GGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAACCCCAATTTTATTTTTAAAATACCGA
TTTTCTATAATCAG
Found at i:371025 original size:52 final size:52
Alignment explanation
Indices: 370942--371070 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
370932 CAAAATATGA
370942 AAATTTGCCTGCATGTATCGATACATCTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATCTCATAGTGTATCGATACATCTGGGC
* * * *
370994 AAATTTGCCTGTAGGTATCAATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATCTCATAGTGTATCGATACATCTGGGC
*
371046 AAATTTGTCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
371071 AAGATCAGTG
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATCTCATAGTGTATCGATACATCTGGGC
Found at i:371081 original size:52 final size:52
Alignment explanation
Indices: 370942--371090 Score: 210
Period size: 52 Copynumber: 2.9 Consensus size: 52
370932 CAAAATATGA
*
370942 AAATTTGCCTGCATGTATCGATACATCTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATATCATAGTGTATCGATACATCTGGGC
* * * *
370994 AAATTTGCCTGTAGGTATCAATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATATCATAGTGTATCGATACATCTGGGC
* **
371046 AAATTTGTCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATATCAT-AGTGTATCGATACA
371091 ATGTATCGAT
Statistics
Matches: 85, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
51 2 0.02
52 83 0.98
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATATCATAGTGTATCGATACATCTGGGC
Found at i:371097 original size:13 final size:13
Alignment explanation
Indices: 371079--371103 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
371069 CAAAGATCAG
371079 TGTATCGATACAA
1 TGTATCGATACAA
371092 TGTATCGATACA
1 TGTATCGATACA
371104 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:371180 original size:19 final size:18
Alignment explanation
Indices: 371156--371218 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
371146 AACGATACAT
371156 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
*
371175 TGTATCAATAC--A-TT-
1 TGTATCGATACAAACTTA
371189 T-TATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
371207 TGTATCGATACA
1 TGTATCGATACA
371219 TTGTATCGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 8 0.22
14 1 0.03
15 2 0.06
16 2 0.06
17 2 0.06
18 1 0.03
19 20 0.56
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:371194 original size:32 final size:32
Alignment explanation
Indices: 371150--371233 Score: 141
Period size: 32 Copynumber: 2.6 Consensus size: 32
371140 CTTCGTAACG
371150 ATACATTGTATCGATACAAAACTTATGTATCA
1 ATACATTGTATCGATACAAAACTTATGTATCA
* * *
371182 ATACATTTTATCGATACAACACTTATGTATCG
1 ATACATTGTATCGATACAAAACTTATGTATCA
371214 ATACATTGTATCGATACAAA
1 ATACATTGTATCGATACAAA
371234 TCGTTGAAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 47 1.00
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.35
Consensus pattern (32 bp):
ATACATTGTATCGATACAAAACTTATGTATCA
Found at i:374614 original size:12 final size:13
Alignment explanation
Indices: 374584--374615 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
374574 AAAAACCTAG
374584 ATGTATTGATACA
1 ATGTATTGATACA
374597 ATGTATTGATAC-
1 ATGTATTGATACA
374609 ATGTATT
1 ATGTATT
374616 AATGTATCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.34, C:0.06, G:0.16, T:0.44
Consensus pattern (13 bp):
ATGTATTGATACA
Found at i:374622 original size:33 final size:33
Alignment explanation
Indices: 374584--374662 Score: 104
Period size: 33 Copynumber: 2.4 Consensus size: 33
374574 AAAAACCTAG
* * *
374584 ATGTATTGATACAATGTATTGATACATGTATTA
1 ATGTATCGATACAATGCATCGATACATGTATTA
* *
374617 ATGTATCGATACAATGCATCGATACATTTATTC
1 ATGTATCGATACAATGCATCGATACATGTATTA
*
374650 ATGTATCAATACA
1 ATGTATCGATACA
374663 TTTCTTTGGC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.38
Consensus pattern (33 bp):
ATGTATCGATACAATGCATCGATACATGTATTA
Found at i:375843 original size:79 final size:79
Alignment explanation
Indices: 375731--375881 Score: 243
Period size: 79 Copynumber: 1.9 Consensus size: 79
375721 CCCCTGACTA
*
375731 TGAAAAATCGATGTTCTGGAAATAAAATCAGGGTTGGAGTATCACC-TTGAAAATAACGGGGTTG
1 TGAAAAATCGATGTTCTGGAAATAAAATCAGGGTTGGAGTATC-CCATCGAAAATAACGGGGTTG
375795 GAGTATCCTCGATTG
65 GAGTATCCTCGATTG
* *
375810 TGAAAAATCGATGTTTTGGAAATAAAA-CTAGGGTTGGAGTATCCCATCGGAAATAACGGGGTTG
1 TGAAAAATCGATGTTCTGGAAATAAAATC-AGGGTTGGAGTATCCCATCGAAAATAACGGGGTTG
375874 GAGTATCC
65 GAGTATCC
375882 CTGATGAAAT
Statistics
Matches: 67, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
78 3 0.04
79 64 0.96
ACGTcount: A:0.33, C:0.13, G:0.27, T:0.27
Consensus pattern (79 bp):
TGAAAAATCGATGTTCTGGAAATAAAATCAGGGTTGGAGTATCCCATCGAAAATAACGGGGTTGG
AGTATCCTCGATTG
Found at i:375875 original size:28 final size:27
Alignment explanation
Indices: 375840--375966 Score: 96
Period size: 28 Copynumber: 4.6 Consensus size: 27
375830 AATAAAACTA
375840 GGGTTGGAGTATCCCATCGGAAATAACG
1 GGGTTGGAGTATCCCAT-GGAAATAACG
*
375868 GGGTTGGAGTATCCC-TGATGAAATAATG
1 GGGTTGGAGTATCCCATG--GAAATAACG
** * * *
375896 GGGTTAAAGTATCCCCTCGAAAATAACA
1 GGGTTGGAGTATCCCAT-GGAAATAACG
** *
375924 AAGTTGGAGTATCCCCAAT-GAAATAACT
1 GGGTTGGAGTAT-CCC-ATGGAAATAACG
*
375952 GGGTTAGAGTATCCC
1 GGGTTGGAGTATCCC
375967 CGATTGTGAA
Statistics
Matches: 77, Mismatches: 16, Indels: 13
0.73 0.15 0.12
Matches are distributed among these distances:
26 1 0.01
27 4 0.05
28 66 0.86
29 4 0.05
30 2 0.03
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.24
Consensus pattern (27 bp):
GGGTTGGAGTATCCCATGGAAATAACG
Found at i:375920 original size:56 final size:56
Alignment explanation
Indices: 375847--375967 Score: 154
Period size: 56 Copynumber: 2.2 Consensus size: 56
375837 CTAGGGTTGG
* * *** **
375847 AGTATCCCATCGGAAATAACGGGGTTGGAGTATCCCTGATGAAATAA-TGGGGTTAA
1 AGTATCCCCTCGAAAATAACAAAGTTGGAGTATCCCCAATGAAATAACT-GGGTTAA
*
375903 AGTATCCCCTCGAAAATAACAAAGTTGGAGTATCCCCAATGAAATAACTGGGTTAG
1 AGTATCCCCTCGAAAATAACAAAGTTGGAGTATCCCCAATGAAATAACTGGGTTAA
375959 AGTATCCCC
1 AGTATCCCC
375968 GATTGTGAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
56 55 0.98
57 1 0.02
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (56 bp):
AGTATCCCCTCGAAAATAACAAAGTTGGAGTATCCCCAATGAAATAACTGGGTTAA
Found at i:376013 original size:51 final size:51
Alignment explanation
Indices: 375954--376067 Score: 167
Period size: 51 Copynumber: 2.2 Consensus size: 51
375944 AAATAACTGG
* * *
375954 GTTAGAGTATCCCCGATTGTGAAAAATTGGTGTTTT-GAAAATGAAATCGGA
1 GTTAGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAG-AAATAAAACCGGA
*
376005 GTTAGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAACCGGA
1 GTTAGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGGA
*
376056 GTTGGAGTATCC
1 GTTAGAGTATCC
376068 TCTCAGAAAT
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
51 56 0.98
52 1 0.02
ACGTcount: A:0.32, C:0.11, G:0.25, T:0.31
Consensus pattern (51 bp):
GTTAGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGGA
Found at i:376143 original size:79 final size:78
Alignment explanation
Indices: 376009--376154 Score: 220
Period size: 79 Copynumber: 1.9 Consensus size: 78
375999 ATCGGAGTTA
* * *
376009 GAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAACCGGAGTTGGAGTATCCTCTCAG
1 GAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGGAGTTAGAGTATCCCCTC-G
376074 AAATAACAGGGTTC
65 AAATAACAGGGTTC
* * * *
376088 GAGTATCCCCGATTGTGAAAAATTAGTGTTTTGGGAATAAAATCGGGGTTAGAGTATCCCCTCGA
1 GAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGGAGTTAGAGTATCCCCTCGA
376153 AA
66 AA
376155 AATTGGTATT
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
78 4 0.07
79 56 0.93
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (78 bp):
GAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGGAGTTAGAGTATCCCCTCGA
AATAACAGGGTTC
Found at i:376174 original size:47 final size:47
Alignment explanation
Indices: 376104--376198 Score: 136
Period size: 47 Copynumber: 2.0 Consensus size: 47
376094 CCCCGATTGT
* * * *
376104 GAAAAATTAGTGTTTTGGGAATAAAATCGGGGTTAGAGTATCCCCTC
1 GAAAAATTAGTATTTTAGAAATAAAACCGGGGTTAGAGTATCCCCTC
* *
376151 GAAAAATTGGTATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTC
1 GAAAAATTAGTATTTTAGAAATAAAACCGGGGTTAGAGTATCCCCTC
376198 G
1 G
376199 GAAATAACGG
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (47 bp):
GAAAAATTAGTATTTTAGAAATAAAACCGGGGTTAGAGTATCCCCTC
Found at i:376218 original size:126 final size:128
Alignment explanation
Indices: 375925--376274 Score: 454
Period size: 126 Copynumber: 2.7 Consensus size: 128
375915 AAAATAACAA
* * *
375925 AGTTGGAGTATCCCC-AATGAAATAACTGGGTTAGAGTATCCCCGATTGTGAAAAATTGGTGTTT
1 AGTTGGAGTATCCCCTCA-GAAATAACAGGGTTAGAGTATCCCCGATTGTGAAAAATTAGTGTTT
* * * * *
375989 TGAAAATGAAATCGGAGTTAGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAACCG
65 TGAAAATAAAATCGGGGTTAGAGTATCCCC-A-TGCGAAAAATTAGTATTTTAGAAATAAAACCG
376054 G
128 G
* *
376055 AGTTGGAGTATCCTCTCAGAAATAACAGGGTTCGAGTATCCCCGATTGTGAAAAATTAGTGTTTT
1 AGTTGGAGTATCCCCTCAGAAATAACAGGGTTAGAGTATCCCCGATTGTGAAAAATTAGTGTTTT
** *
376120 GGGAATAAAATCGGGGTTAGAGTATCCCC-T-CGAAAAATTGGTATTTTAGAAATAAAACCGG
66 GAAAATAAAATCGGGGTTAGAGTATCCCCATGCGAAAAATTAGTATTTTAGAAATAAAACCGG
* * * * * *
376181 GGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCTGATTGTGAAAAATTAATGTTTT
1 AGTTGGAGTATCCCCTCAGAAATAACAGGGTTAGAGTATCCCCGATTGTGAAAAATTAGTGTTTT
* * *
376246 GAAAATAAAACCGAGGTTGGAGTATCCCC
66 GAAAATAAAATCGGGGTTAGAGTATCCCC
376275 GAGATGAAAA
Statistics
Matches: 194, Mismatches: 25, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
126 109 0.56
127 1 0.01
130 83 0.43
131 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.29
Consensus pattern (128 bp):
AGTTGGAGTATCCCCTCAGAAATAACAGGGTTAGAGTATCCCCGATTGTGAAAAATTAGTGTTTT
GAAAATAAAATCGGGGTTAGAGTATCCCCATGCGAAAAATTAGTATTTTAGAAATAAAACCGG
Found at i:379668 original size:13 final size:13
Alignment explanation
Indices: 379650--379675 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
379640 ACAAAGATCC
379650 ATGTATCGATACA
1 ATGTATCGATACA
379663 ATGTATCGATACA
1 ATGTATCGATACA
379676 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:379671 original size:33 final size:33
Alignment explanation
Indices: 379629--379695 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
379619 AAAATTTCCA
***
379629 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
379662 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
379695 A
1 A
379696 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:379755 original size:13 final size:13
Alignment explanation
Indices: 379737--379761 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
379727 ACAATACTTA
379737 TGTATCGATACAT
1 TGTATCGATACAT
379750 TGTATCGATACA
1 TGTATCGATACA
379762 AAATTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:379774 original size:19 final size:17
Alignment explanation
Indices: 379713--379784 Score: 62
Period size: 19 Copynumber: 4.2 Consensus size: 17
379703 GGCAGTAGCT
*
379713 AATTATGTGTCGATACA
1 AATTATGTATCGATACA
379730 ATACTTATGTATCGATAC-
1 A-A-TTATGTATCGATACA
379748 -A-T-TGTATCGATACAA
1 AATTATGTATCGATAC-A
*
379763 AATTTATGTATCGATACG
1 AA-TTATGTATCGATACA
379781 AATT
1 AATT
379785 GTTGAATTTC
Statistics
Matches: 45, Mismatches: 2, Indels: 16
0.71 0.03 0.25
Matches are distributed among these distances:
13 11 0.24
14 1 0.02
16 2 0.04
17 3 0.07
18 4 0.09
19 24 0.53
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (17 bp):
AATTATGTATCGATACA
Found at i:380989 original size:290 final size:289
Alignment explanation
Indices: 380597--381371 Score: 1086
Period size: 290 Copynumber: 2.7 Consensus size: 289
380587 ATAAAGTGTA
* *
380597 TCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTCGTGTGGGCTTT--G-A-AAGGCGTCCTGC
1 TCCTGCTCTTTGAGGACT-AAAAGTGCCACCAACTTGTGTGGGCTTTAAGAAGAAGGCGTCCTGC
*
380658 TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGA
65 TCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGA
*
380723 CT-GGAACATGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGACTGGAAAA
130 CTAGGAA-GTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTTTGAGGACTGGAAAA
*
380786 TGCCACCAACTTGTGTGGGCTTTGAAAGGCAAAA-GCATCCTGCTCTTTGAGGACTGAAGG-TGC
193 TGCCACCAACTTGTGTGGGCTTTGAAA-G-AAAAGGCATCCCGCTCTTTGAGGACTGAAGGATGC
* *
380849 CACCAACTTGGCTGGGCTTTAAAA-GAAAAGGCG
256 CACCAACTTCGATGGGCTTTAAAAGGAAAAGGCG
* *
380882 TCCTGCTCTTTGAGGATTAAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGAAGAAGGCGTCCTG
1 TCCTGCTCTTTGAGGACTAAAAGTGCCACCAACTTGTGTGGGCTTT-A-AGAAGAAGGCGTCCTG
* *
380947 CTCTTTGAGGACTGGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGTATCCTGCTCTTTGAG
64 CTCTTTGAGGACT-GGAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAG
* * * *
381011 GATTAGGAAGTGCGACCAACTCGTGTGGGCTTTAAGAGGTGTCCTACTCTTTGAGGACTGGAAAA
128 GACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGGAAAA
* *
381076 TGCCACCAACTTGTGTGGGCTTTGAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGGAGGATGCCA
193 TGCCACCAACTTGTGTGGGCTTTGAAAGAAAAGGCATCCCGCTCTTTGAGGACTGAAGGATGCCA
* *
381141 CCAACTTCTATGGGCTTTAAAAGGAGAAGGCG
258 CCAACTTCGATGGGCTTTAAAAGGAAAAGGCG
**
381173 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAGAAGGCGTCCT
1 TCCTGCTCTTTGAGGACT-AAAAGTGCCACCAACTTGTGTGGGCTTT--AAGAAGAAGGCGTCCT
* *
381238 GCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAGGGAGAAGGCGTCCTACTC
63 GCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTT--A---AG-AGGTGTCCTGCTC
* *
381302 TTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCCTGCTCTTTGAGGACT
122 TTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACT
381367 AGGAA
187 -GGAA
381372 GAGCTAAAAG
Statistics
Matches: 434, Mismatches: 34, Indels: 31
0.87 0.07 0.06
Matches are distributed among these distances:
284 25 0.06
285 17 0.04
288 5 0.01
289 27 0.06
290 174 0.40
291 56 0.13
292 54 0.12
293 2 0.00
296 1 0.00
297 69 0.16
298 4 0.01
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (289 bp):
TCCTGCTCTTTGAGGACTAAAAGTGCCACCAACTTGTGTGGGCTTTAAGAAGAAGGCGTCCTGCT
CTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGAC
TAGGAAGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGGAAAATGC
CACCAACTTGTGTGGGCTTTGAAAGAAAAGGCATCCCGCTCTTTGAGGACTGAAGGATGCCACCA
ACTTCGATGGGCTTTAAAAGGAAAAGGCG
Found at i:381155 original size:60 final size:59
Alignment explanation
Indices: 380597--381366 Score: 789
Period size: 55 Copynumber: 13.3 Consensus size: 59
380587 ATAAAGTGTA
** ** *
380597 TCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTCGTGTGGGCTTT---G-AAAGGCG
1 TCCTGCTCTTTGAGGACTGGAGGATGCCACCAACTTGTGTGGGCTTTAAAGAAAAGGCG
* *
380652 TCCTGCTCTTTGAGGACTGAAAGG-TGCCACCAACTTGTGTGGGCTTT-AAG---AGGTG
1 TCCTGCTCTTTGAGGACTG-GAGGATGCCACCAACTTGTGTGGGCTTTAAAGAAAAGGCG
** *
380707 TCCTGCTCTTTGAGGACTGGAACATGCCACCAACTTGTGTGGGCTTT---G-AAAGGTG
1 TCCTGCTCTTTGAGGACTGGAGGATGCCACCAACTTGTGTGGGCTTTAAAGAAAAGGCG
** *
380762 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCAAAA-GCA
1 TCCTGCTCTTTGAGGACTGGAGGATGCCACCAACTTGTGTGGGCTTT-AAA-G-AAAAGGCG
*
380823 TCCTGCTCTTTGAGGACTGAAGG-TGCCACCAACTTG-GCTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAGGATGCCACCAACTTGTG-TGGGCTTT-AAAGAAAAGGCG
* ** *
380882 TCCTGCTCTTTGAGGATTAAAGG-TGCCACCAACTTGTGTGGGCTTTGAGAGAAGAAGGCG
1 TCCTGCTCTTTGAGGACTGGAGGATGCCACCAACTTGTGTGGGCTTT-AAAGAA-AAGGCG
* **
380942 TCCTGCTCTTTGAGGACTGG-GAAGTGCCACCAACTTGTGTGGGCTTT----AAAAGGTA
1 TCCTGCTCTTTGAGGACTGGAGGA-TGCCACCAACTTGTGTGGGCTTTAAAGAAAAGGCG
* * * * *
380997 TCCTGCTCTTTGAGGATTAGGAAG-TGCGACCAACTCGTGTGGGCTTT-AAG---AGGTG
1 TCCTGCTCTTTGAGGACT-GGAGGATGCCACCAACTTGTGTGGGCTTTAAAGAAAAGGCG
* **
381052 TCCTACTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAGGATGCCACCAACTTGTGTGGGCTTT-AAAGAAAAGGCG
* * * *
381112 TCCCGCTCTTTGAGGACTGGAGGATGCCACCAACTTCTATGGGCTTTAAAAGGAGAAGGCG
1 TCCTGCTCTTTGAGGACTGGAGGATGCCACCAACTTGTGTGGGCTTT-AAA-GAAAAGGCG
*
381173 TCCTGCTCTTTGAGGACTGG-GAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAGAAGGCG
1 TCCTGCTCTTTGAGGACTGGAGGA-TGCCACCAACTTGTGTGGGCTTT-AAAGAA-AAGGCG
* *
381234 TCCTGCTCTTTGAGGACTGAAGG-TGCCACCAACTTGTGTGGGCTTTAAAGGGAGAAGGCG
1 TCCTGCTCTTTGAGGACTGGAGGATGCCACCAACTTGTGTGGGCTTTAAA--GAAAAGGCG
* *
381294 TCCTACTCTTTGAGGACTGG-GAAGTGCCACCAACTTGTGTGGGCTTT-AAG---AGGCG
1 TCCTGCTCTTTGAGGACTGGAGGA-TGCCACCAACTTGTGTGGGCTTTAAAGAAAAGGCG
381349 TCCTGCTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
381367 AGGAAGAGCT
Statistics
Matches: 619, Mismatches: 58, Indels: 76
0.82 0.08 0.10
Matches are distributed among these distances:
53 1 0.00
54 5 0.01
55 242 0.39
56 6 0.01
57 4 0.01
58 5 0.01
59 56 0.09
60 150 0.24
61 146 0.24
62 4 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.26
Consensus pattern (59 bp):
TCCTGCTCTTTGAGGACTGGAGGATGCCACCAACTTGTGTGGGCTTTAAAGAAAAGGCG
Found at i:387951 original size:13 final size:13
Alignment explanation
Indices: 387933--387958 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
387923 ACAAAGATCC
387933 ATGTATCGATACA
1 ATGTATCGATACA
387946 ATGTATCGATACA
1 ATGTATCGATACA
387959 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:387954 original size:33 final size:33
Alignment explanation
Indices: 387912--387978 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
387902 AAAATTTCCA
***
387912 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
387945 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
387978 A
1 A
387979 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:388022 original size:19 final size:17
Alignment explanation
Indices: 387996--388067 Score: 71
Period size: 19 Copynumber: 4.2 Consensus size: 17
387986 GGCAGTAGCT
387996 AATTATGTATCGATACA
1 AATTATGTATCGATACA
388013 ATACTTATGTATCGATAC-
1 A-A-TTATGTATCGATACA
388031 -A-T-TGTATCGATACAA
1 AATTATGTATCGATAC-A
*
388046 AATTTATGTATCGATACG
1 AA-TTATGTATCGATACA
388064 AATT
1 AATT
388068 GTTGAATTTC
Statistics
Matches: 46, Mismatches: 1, Indels: 16
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.24
14 1 0.02
16 2 0.04
17 3 0.07
18 4 0.09
19 25 0.54
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (17 bp):
AATTATGTATCGATACA
Found at i:388038 original size:13 final size:13
Alignment explanation
Indices: 388020--388044 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
388010 ACAATACTTA
388020 TGTATCGATACAT
1 TGTATCGATACAT
388033 TGTATCGATACA
1 TGTATCGATACA
388045 AAATTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:388042 original size:32 final size:32
Alignment explanation
Indices: 388001--388062 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
387991 TAGCTAATTA
*
388001 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
*
388033 TGTATCGATACAAAATTTATGTATCGATAC
1 TGTATCGATACAAAACTTATGTATCGATAC
388063 GAATTGTTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:388127 original size:21 final size:21
Alignment explanation
Indices: 388101--388177 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
388091 GTTGGGACCC
* *
388101 TGTATCGATACATTTGTA-GAA
1 TGTATCGATACA-TTCTACAAA
*
388122 TGTATCGATACATTCCACAAA
1 TGTATCGATACATTCTACAAA
388143 TGTATCGATACATTCTACAAA
1 TGTATCGATACATTCTACAAA
388164 TGTATCGATACATT
1 TGTATCGATACATT
388178 TGAATTTTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 3 0.06
21 48 0.94
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (21 bp):
TGTATCGATACATTCTACAAA
Found at i:388734 original size:20 final size:20
Alignment explanation
Indices: 388709--388812 Score: 82
Period size: 20 Copynumber: 4.8 Consensus size: 20
388699 AAAATGCCTG
388709 AATGTATCGATACATTGAAA
1 AATGTATCGATACATTGAAA
388729 AATGTATCGATACATCTAGGTAAACCCA
1 AATGTATCGATACAT-T--G--AA---A
* *
388757 GAATGTATCGATACAATGAAT
1 -AATGTATCGATACATTGAAA
* *
388778 AATGTATCGATACAATGAAC
1 AATGTATCGATACATTGAAA
*
388798 AATGTATCAATACAT
1 AATGTATCGATACAT
388813 CTGGGTAAAA
Statistics
Matches: 70, Mismatches: 5, Indels: 18
0.75 0.05 0.19
Matches are distributed among these distances:
20 47 0.67
21 1 0.01
23 1 0.01
24 2 0.03
25 2 0.03
26 1 0.01
28 2 0.03
29 14 0.20
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.28
Consensus pattern (20 bp):
AATGTATCGATACATTGAAA
Found at i:388791 original size:69 final size:70
Alignment explanation
Indices: 388709--388860 Score: 225
Period size: 69 Copynumber: 2.2 Consensus size: 70
388699 AAAATGCCTG
* * *
388709 AATGTATCGATACATTGAAAAATGTATCGATACATCTAGGT-AAACCCAGAATGTATCGATACAA
1 AATGTATCGATACAATGAAAAATGTATCAATACATCTAGGTAAAACCCAGAATGTATCAATACAA
*
388773 TGAAT
66 TGAAC
* * *
388778 AATGTATCGATACAATGAACAATGTATCAATACATCTGGGTAAAACTCAGAATGTATCAATACAA
1 AATGTATCGATACAATGAAAAATGTATCAATACATCTAGGTAAAACCCAGAATGTATCAATACAA
388843 TGAAC
66 TGAAC
*
388848 AATGTATTGATAC
1 AATGTATCGATAC
388861 CAATTGTGAA
Statistics
Matches: 74, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
69 37 0.50
70 37 0.50
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.28
Consensus pattern (70 bp):
AATGTATCGATACAATGAAAAATGTATCAATACATCTAGGTAAAACCCAGAATGTATCAATACAA
TGAAC
Found at i:389232 original size:5 final size:5
Alignment explanation
Indices: 389216--389247 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
389206 CATTCAATTT
389216 TTTTA -TTT- TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
389248 TGGTTTTCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
4 6 0.24
5 19 0.76
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (5 bp):
TTTTA
Found at i:389453 original size:41 final size:42
Alignment explanation
Indices: 389408--389825 Score: 245
Period size: 43 Copynumber: 9.7 Consensus size: 42
389398 GGAAAGGGGT
** * *
389408 GTCCTGCTCTTTGAGGATTAAGG-AAAAGGAGAATGAAATGG
1 GTCCTGCTCTTTGAGGACAAAGGAAAAAGGAGAATAAAATGC
* * * * * *
389449 GTCCTGCTCATTGGGGACTACGGAGAAAAAGAAAATAAAATGC
1 GTCCTGCTCTTTGAGGACAAAGGA-AAAAGGAGAATAAAATGC
* * * * * * * *
389492 ATCCTACCCTTTAAAGATAAAGGAAAAAGGA-AATTAAATGT
1 GTCCTGCTCTTTGAGGACAAAGGAAAAAGGAGAATAAAATGC
*
389533 GTCCTGCTTTTTGAGGACAAAGGAAAAAGGAGAATAAAATGC
1 GTCCTGCTCTTTGAGGACAAAGGAAAAAGGAGAATAAAATGC
* * ** * * *
389575 GTCCTGCTTTTTGAGAACTAGAAGGGAAAAAAAAGAAATCAAGTGT
1 GTCCTGCTCTTTGAGGAC-A-AA-GGAAAAAGGAG-AATAAAATGC
* ** * *
389621 GTCCTACTCTTTGAGGACAAAGGAAAAAAAAAGAAAAAAAGGC
1 GTCCTGCTCTTTGAGGACAAAGG-AAAAAGGAGAATAAAATGC
* * * **
389664 ATCCTACTCTTCGAGGACAAAAGGGAAAAGAAGGA-AATGGAATGC
1 GTCCTGCTCTTTGAGGAC-AAA-GG-AAA-AAGGAGAATAAAATGC
* * * * *
389709 ATCATGCTCTTTGAAGACAAAGGAAAAA--AGAAAAAAAGGC
1 GTCCTGCTCTTTGAGGACAAAGGAAAAAGGAGAATAAAATGC
* * * * *
389749 ATCCTACTCTTTGAGTACAAAAGGGAAAAGAAGGA-AATGAAATGT
1 GTCCTGCTCTTTGAGGAC-AAA-GG-AAA-AAGGAGAATAAAATGC
389794 GTCCTGCTCTTTGAGGACAAAGGAGAAAAGGA
1 GTCCTGCTCTTTGAGGACAAAGGA-AAAAGGA
389826 AAAGGCATCA
Statistics
Matches: 287, Mismatches: 71, Indels: 37
0.73 0.18 0.09
Matches are distributed among these distances:
39 1 0.00
40 20 0.07
41 56 0.20
42 42 0.15
43 61 0.21
44 24 0.08
45 57 0.20
46 26 0.09
ACGTcount: A:0.43, C:0.13, G:0.24, T:0.20
Consensus pattern (42 bp):
GTCCTGCTCTTTGAGGACAAAGGAAAAAGGAGAATAAAATGC
Found at i:389613 original size:88 final size:87
Alignment explanation
Indices: 389431--389825 Score: 374
Period size: 85 Copynumber: 4.6 Consensus size: 87
389421 AGGATTAAGG
* * * * * * *
389431 AAAAGGAGAATGAAATGGGTCCTGCTCATTGGGGACTACGGAGAAAAAGA-AAATAAAATGCATC
1 AAAAGGA-AATGAAATGTGTCCTGCTCTTTGAGGACAAAGGA-AAAAGGAGAAA-AAAAGGCATC
* *
389495 CTACCCTTT-A-AAGATAAA-GG--A
63 CTACTCTTTGAGAACA-AAAGGGAAA
* * * * * *
389516 AAAAGGAAATTAAATGTGTCCTGCTTTTTGAGGACAAAGGAAAAAGGAGAATAAAATGCGTCCTG
1 AAAAGGAAATGAAATGTGTCCTGCTCTTTGAGGACAAAGGAAAAAGGAGAAAAAAAGGCATCCTA
* *
389581 CTTTTTGAGAACTAGAAGGGAAA
66 CTCTTTGAGAAC-AAAAGGGAAA
* * * * **
389604 AAAAAGAAATCAAGTGTGTCCTACTCTTTGAGGACAAAGGAAAAAAAAAGAAAAAAAGGCATCCT
1 AAAAGGAAATGAAATGTGTCCTGCTCTTTGAGGACAAAGG-AAAAAGGAGAAAAAAAGGCATCCT
* *
389669 ACTCTTCGAGGACAAAAGGGAAA
65 ACTCTTTGAGAACAAAAGGGAAA
* * ** * *
389692 AGAAGGAAATGGAATGCATCATGCTCTTTGAAGACAAAGGAAAAA--AGAAAAAAAGGCATCCTA
1 AAAAGGAAATGAAATGTGTCCTGCTCTTTGAGGACAAAGGAAAAAGGAGAAAAAAAGGCATCCTA
*
389755 CTCTTTGAGTACAAAAGGGAAA
66 CTCTTTGAGAACAAAAGGGAAA
*
389777 AGAAGGAAATGAAATGTGTCCTGCTCTTTGAGGACAAAGGAGAAAAGGA
1 AAAAGGAAATGAAATGTGTCCTGCTCTTTGAGGACAAAGGA-AAAAGGA
389826 AAAGGCATCA
Statistics
Matches: 252, Mismatches: 47, Indels: 19
0.79 0.15 0.06
Matches are distributed among these distances:
83 21 0.08
84 30 0.12
85 85 0.34
86 7 0.03
87 5 0.02
88 76 0.30
89 28 0.11
ACGTcount: A:0.45, C:0.13, G:0.24, T:0.19
Consensus pattern (87 bp):
AAAAGGAAATGAAATGTGTCCTGCTCTTTGAGGACAAAGGAAAAAGGAGAAAAAAAGGCATCCTA
CTCTTTGAGAACAAAAGGGAAA
Found at i:389822 original size:45 final size:44
Alignment explanation
Indices: 389408--389823 Score: 252
Period size: 41 Copynumber: 9.7 Consensus size: 44
389398 GGAAAGGGGT
** * * *
389408 GTCCTGCTCTTTGAGGATTAA-GGAAAAGGA-G-AATGAAATGG
1 GTCCTGCTCTTTGAGGACAAAGGGAAAAGAAGGAAATAAAATGC
* * * * *
389449 GTCCTGCTCATTGGGGAC-TACGGAGAAA-AAGAAAATAAAATGC
1 GTCCTGCTCTTTGAGGACAAAGGGA-AAAGAAGGAAATAAAATGC
* * * * * * * *
389492 ATCCTACCCTTTAAAGATAAA-GG-AAA-AAGGAAATTAAATGT
1 GTCCTGCTCTTTGAGGACAAAGGGAAAAGAAGGAAATAAAATGC
*
389533 GTCCTGCTTTTTGAGGACAAA-GG-AAA-AAGGAGAATAAAATGC
1 GTCCTGCTCTTTGAGGACAAAGGGAAAAGAAGGA-AATAAAATGC
* * * * * * *
389575 GTCCTGCTTTTTGAGAACTAGAAGGGAAAAAAAAGAAATCAAGTGT
1 GTCCTGCTCTTTGAGGAC-A-AAGGGAAAAGAAGGAAATAAAATGC
* * * * *
389621 GTCCTACTCTTTGAGGACAAAGGAAAAAAAAAGAAA-AAAAGGC
1 GTCCTGCTCTTTGAGGACAAAGGGAAAAGAAGGAAATAAAATGC
* * * **
389664 ATCCTACTCTTCGAGGACAAAAGGGAAAAGAAGGAAATGGAATGC
1 GTCCTGCTCTTTGAGGAC-AAAGGGAAAAGAAGGAAATAAAATGC
* * * *
389709 ATCATGCTCTTTGAAGACAAA-GGAAAA-AA-GAAA-AAAAGGC
1 GTCCTGCTCTTTGAGGACAAAGGGAAAAGAAGGAAATAAAATGC
* * * * *
389749 ATCCTACTCTTTGAGTACAAAAGGGAAAAGAAGGAAATGAAATGT
1 GTCCTGCTCTTTGAGGAC-AAAGGGAAAAGAAGGAAATAAAATGC
389794 GTCCTGCTCTTTGAGGACAAAGGAGAAAAG
1 GTCCTGCTCTTTGAGGACAAAGG-GAAAAG
389824 GAAAAGGCAT
Statistics
Matches: 289, Mismatches: 67, Indels: 34
0.74 0.17 0.09
Matches are distributed among these distances:
40 19 0.07
41 65 0.22
42 36 0.12
43 48 0.17
44 46 0.16
45 46 0.16
46 25 0.09
47 4 0.01
ACGTcount: A:0.43, C:0.13, G:0.24, T:0.20
Consensus pattern (44 bp):
GTCCTGCTCTTTGAGGACAAAGGGAAAAGAAGGAAATAAAATGC
Found at i:389922 original size:61 final size:60
Alignment explanation
Indices: 389819--390328 Score: 582
Period size: 61 Copynumber: 8.6 Consensus size: 60
389809 GACAAAGGAG
* * * ** * *
389819 AAAAGGAAAAGGCATCATGCTCTTTGAGGACTAAAAAGTGCCACCAACTCATCTAGGCTTT
1 AAAA-GAAAAGGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
* * * *
389880 GAAAAGAAAAGGCGTCCAGCTCTTTGAGGACTGAAAGATGCCACCAGCTTGTGTGGGCTTT
1 -AAAAGAAAAGGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
* * * * * *
389941 GCAAAGAGAAA-GCATCCTACTCTTCGAGGACTGGAAGGTGCCACCAACTTGAGTGGTCTTT
1 -AAAAGA-AAAGGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
390002 AAAAGGAGAAA-GCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
1 AAAA-GA-AAAGGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
* *
390063 AAAAGGAAAAAGCGTCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT
1 AAAA-GAAAAGGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
* *
390123 ----G-AAAGGCATCCTGCTCTTTGAAGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
1 AAAAGAAAAGGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
* *
390178 AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTG-AAGGTGCCACCAGCTTGTGTGGGCTTT
1 AAAA-GAAAAGGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
* * *
390238 ----G-AAAGGCGTCCTACTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTT
1 AAAAGAAAAGGCATCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT
*
390293 GAAAGGAAAAGGCATCCTGCTCTTTGAGGACTGAAA
1 -AAAAGAAAAGGCATCCTGCTCTTTGAGGACTGAAA
390329 AGTGAAAGGA
Statistics
Matches: 389, Mismatches: 41, Indels: 38
0.83 0.09 0.08
Matches are distributed among these distances:
54 46 0.12
55 52 0.13
56 2 0.01
60 65 0.17
61 217 0.56
62 7 0.02
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (60 bp):
AAAAGAAAAGGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
Found at i:390169 original size:115 final size:115
Alignment explanation
Indices: 389819--390327 Score: 574
Period size: 115 Copynumber: 4.3 Consensus size: 115
389809 GACAAAGGAG
* * * * ** * *
389819 AAAAGGAAAAGGCATCATGCTCTTTGAGGACTAAAAAGTGCCACCAACTCATCTAGGCTTTGAAA
1 AAAAGGAAAAAGCATCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTT----
* * * * *
389884 AGAAAAGGCGTCCAGCTCTTTGAGGACTGAAAGATGCCACCAGCTTGTGTGGGCTTT
61 -G-AAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
* * * * * *
389941 GCAAA-GAGAAAGCATCCTACTCTTCGAGGACTGGAAGGTGCCACCAACTTGAGTGGTCTTTAAA
1 -AAAAGGAAAAAGCATCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTT---
* *
390005 AGGAGAAAGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
61 --GA-AAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
*
390063 AAAAGGAAAAAGCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
1 AAAAGGAAAAAGCATCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
*
390128 GCATCCTGCTCTTTGAAGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
66 GCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
* * *
390178 AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAG
1 AAAAGGAAAAAGCATCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
* *
390243 GCGTCCTACTCTTTGAGGACTGGAAAA--TGCCACCAACTTGTGTGGGCTTT
66 GCATCCTGCTCTTTGAGGACT--AAAAGGTGCCACCAACTTGTGTGGGCTTT
* *
390293 GAAAGGAAAAGGCATCCTGCTCTTTGAGGACTGAA
1 AAAAGGAAAAAGCATCCTGCTCTTTGAGGACTGAA
390328 AAGTGAAAGG
Statistics
Matches: 343, Mismatches: 39, Indels: 16
0.86 0.10 0.04
Matches are distributed among these distances:
115 187 0.55
116 2 0.01
117 4 0.01
121 30 0.09
122 117 0.34
123 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (115 bp):
AAAAGGAAAAAGCATCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
GCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
Found at i:390306 original size:176 final size:177
Alignment explanation
Indices: 389819--390330 Score: 598
Period size: 176 Copynumber: 2.9 Consensus size: 177
389809 GACAAAGGAG
* * * ** * *
389819 AAAAGGA-AAAGGCATCATGCTCTTTGAGGACTAAAAAGTGCCACCAACTCATCTAGGCTTTGAA
1 AAAAGGAGAAA-GCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT---
*
389883 AAGAAAAGGCGTCC-AGCTCTTTGAGGACTGAAAGATGCCACCAGCTTGTGTGGGCTTTGCAAAG
62 -AGAAAAGGCGTCCTA-CTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTG-AAAG
* * ** *
389947 AGAAA-GCATCCTACTCTTCGAGGACTGGAAGGTGCCACCAACTTGAGTGGTCTTT
123 A-AAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGAGTGGGCTTT
390002 AAAAGGAGAAAGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA
1 AAAAGGAGAAAGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT---A
* * **
390067 GGAAAAAGCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAA
63 -GAAAAGGCGTCCTACTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGAAAA
* *
390127 GGCATCCTGCTCTTTGAAGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
127 GGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGAGTGGGCTTT
* *
390178 AAAAGGA-AAAGGCGTCCTGCTCTTTGAGGACTG-AAGGTGCCACCAGCTTGTGTGGGCTTT-G-
1 AAAAGGAGAAA-GCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAGA
390239 AAAGGCGTCCTACTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
65 AAAGGCGTCCTACTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAA-GAAAAG
390304 GCATCCTGCTCTTTGAGGACTGAAAAG
128 GCATCCTGCTCTTTGAGGACT-AAAAG
390331 TGAAAGGAGA
Statistics
Matches: 290, Mismatches: 26, Indels: 32
0.83 0.07 0.09
Matches are distributed among these distances:
169 23 0.08
170 27 0.09
175 33 0.11
176 95 0.33
177 6 0.02
182 26 0.09
183 77 0.27
184 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (177 bp):
AAAAGGAGAAAGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAGAA
AAGGCGTCCTACTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGAAAAGGCA
TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGAGTGGGCTTT
Found at i:391299 original size:1 final size:1
Alignment explanation
Indices: 391295--391400 Score: 77
Period size: 1 Copynumber: 106.0 Consensus size: 1
391285 CTTAAGCAGG
* * * * * * * ** *
391295 TTTTTTTTTTCTTTTCTCTATTTTTTTCTTTTTTTTTGTTTTTTGTTTTTTTTTTTGCTTTTTTG
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * *
391360 TTTTGTTTTTTTATTTTTTGTTTTTTTTGTTATTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
391401 AAATAGAAGG
Statistics
Matches: 76, Mismatches: 29, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 76 1.00
ACGTcount: A:0.03, C:0.05, G:0.07, T:0.86
Consensus pattern (1 bp):
T
Found at i:391318 original size:20 final size:17
Alignment explanation
Indices: 391295--391400 Score: 88
Period size: 17 Copynumber: 6.2 Consensus size: 17
391285 CTTAAGCAGG
* *
391295 TTTTTTTTTTCTTTTCT
1 TTTTTTTTTTATTTTTT
* * *
391312 CTATTTTTTTCTTTTTT
1 TTTTTTTTTTATTTTTT
* *
391329 TTTGTTTTTTGTTTTTT
1 TTTTTTTTTTATTTTTT
** *
391346 TTTTTGCTTT-TTTGTT
1 TTTTTTTTTTATTTTTT
*
391362 TTGTTTTTTTATTTTTT
1 TTTTTTTTTTATTTTTT
391379 GTTTTTTTTGTTATTTTTT
1 -TTTTTTTT-TTATTTTTT
391398 TTT
1 TTT
391401 AAATAGAAGG
Statistics
Matches: 70, Mismatches: 16, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
16 12 0.17
17 39 0.56
18 10 0.14
19 9 0.13
ACGTcount: A:0.03, C:0.05, G:0.07, T:0.86
Consensus pattern (17 bp):
TTTTTTTTTTATTTTTT
Found at i:391345 original size:27 final size:25
Alignment explanation
Indices: 391295--391400 Score: 97
Period size: 25 Copynumber: 4.3 Consensus size: 25
391285 CTTAAGCAGG
* * * *
391295 TTTTTTTTTTCTTTTCTCTATTTTT
1 TTTTTTTTTTTTTTTTTTTGTTTTT
* *
391320 TTCTTTTTTTTTGTTTTTTGTTTTT
1 TTTTTTTTTTTTTTTTTTTGTTTTT
** *
391345 TTTTTTGCTTTTTTGTTTTG-TTTT
1 TTTTTTTTTTTTTTTTTTTGTTTTT
* * *
391369 TTTATTTTTTGTTTTTTTTGTTATT
1 TTTTTTTTTTTTTTTTTTTGTTTTT
391394 TTTTTTT
1 TTTTTTT
391401 AAATAGAAGG
Statistics
Matches: 62, Mismatches: 18, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
24 19 0.31
25 43 0.69
ACGTcount: A:0.03, C:0.05, G:0.07, T:0.86
Consensus pattern (25 bp):
TTTTTTTTTTTTTTTTTTTGTTTTT
Found at i:401903 original size:2 final size:2
Alignment explanation
Indices: 401896--401929 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
401886 GTCAAAATTT
401896 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
401930 AGAGAACTGT
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):
TA
Found at i:403164 original size:5 final size:5
Alignment explanation
Indices: 403154--403187 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
403144 TGTATTTCCC
403154 TATAT TATAT TATAT TATAT TATAT TATAT TATA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATA
403188 GATACTGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:403577 original size:17 final size:17
Alignment explanation
Indices: 403551--403634 Score: 93
Period size: 17 Copynumber: 5.1 Consensus size: 17
403541 TTAAAGCTCT
*
403551 AATTTGAAAAAAATCTA
1 AATTTAAAAAAAATCTA
*
403568 AATTT--AAAAAATTTA
1 AATTTAAAAAAAATCTA
403583 AATTTAAAAAAAATCTA
1 AATTTAAAAAAAATCTA
* *
403600 AA-TTCAAAAATATCTA
1 AATTTAAAAAAAATCTA
* *
403616 AACTCAAAAAAAATCTA
1 AATTTAAAAAAAATCTA
403633 AA
1 AA
403635 ATTGACATGC
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
15 14 0.25
16 14 0.25
17 29 0.51
ACGTcount: A:0.62, C:0.08, G:0.01, T:0.29
Consensus pattern (17 bp):
AATTTAAAAAAAATCTA
Found at i:403578 original size:15 final size:15
Alignment explanation
Indices: 403558--403617 Score: 75
Period size: 15 Copynumber: 3.8 Consensus size: 15
403548 TCTAATTTGA
403558 AAAAAATCTAAATTT
1 AAAAAATCTAAATTT
*
403573 AAAAAATTTAAATTT
1 AAAAAATCTAAATTT
*
403588 AAAAAAAATCTAAATTC
1 --AAAAAATCTAAATTT
403605 AAAAATATCTAAA
1 AAAAA-ATCTAAA
403618 CTCAAAAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
15 19 0.49
16 7 0.18
17 13 0.33
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (15 bp):
AAAAAATCTAAATTT
Found at i:403625 original size:33 final size:32
Alignment explanation
Indices: 403557--403634 Score: 111
Period size: 33 Copynumber: 2.4 Consensus size: 32
403547 CTCTAATTTG
* * * *
403557 AAAAAAATCTAAATTTAAAAAATTTAAATTTA
1 AAAAAAATCTAAATTCAAAAAATCTAAACTCA
403589 AAAAAAATCTAAATTCAAAAATATCTAAACTCA
1 AAAAAAATCTAAATTCAAAAA-ATCTAAACTCA
403622 AAAAAAATCTAAA
1 AAAAAAATCTAAA
403635 ATTGACATGC
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
32 20 0.49
33 21 0.51
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.27
Consensus pattern (32 bp):
AAAAAAATCTAAATTCAAAAAATCTAAACTCA
Found at i:404279 original size:23 final size:24
Alignment explanation
Indices: 404236--404284 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
404226 ATTATCTCGT
404236 AAATTAAAATAAAAAAATTAA-AC
1 AAATTAAAATAAAAAAATTAATAC
* *
404259 AAATT-AAATAATTAAATTTAATAC
1 AAATTAAAATAA-AAAAATTAATAC
404283 AA
1 AA
404285 CATCCAAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 6 0.27
23 12 0.55
24 4 0.18
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (24 bp):
AAATTAAAATAAAAAAATTAATAC
Found at i:404960 original size:16 final size:18
Alignment explanation
Indices: 404939--404972 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
404929 AATAAAATTA
404939 TTATAT-AAT-TTTATTT
1 TTATATAAATATTTATTT
404955 TTATATAAATATTTATTT
1 TTATATAAATATTTATTT
404973 ATTTTTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 3 0.19
18 7 0.44
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TTATATAAATATTTATTT
Found at i:404993 original size:21 final size:22
Alignment explanation
Indices: 404948--404989 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
404938 ATTATATAAT
*
404948 TTTATTTTTATATAAATATTTA
1 TTTATTTTTATAAAAATATTTA
404970 TTTATTTTT-TAAAAAT-TTTA
1 TTTATTTTTATAAAAATATTTA
404990 ATTTTAGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 4 0.21
21 6 0.32
22 9 0.47
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
TTTATTTTTATAAAAATATTTA
Found at i:405581 original size:3 final size:3
Alignment explanation
Indices: 405573--405615 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
405563 GTTACTTTGA
405573 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
405616 TTCCATATAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:414390 original size:22 final size:23
Alignment explanation
Indices: 414365--414422 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 23
414355 TTTAAAAGAA
* *
414365 TTAAAAATAATTAATAATTA-TT
1 TTAAAAATAATAAAAAATTATTT
*
414387 TTAAAAAAAATAAAAAATTATTT
1 TTAAAAATAATAAAAAATTATTT
*
414410 TTAAAAATTATAA
1 TTAAAAATAATAA
414423 CAATTAAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 17 0.57
23 13 0.43
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (23 bp):
TTAAAAATAATAAAAAATTATTT
Found at i:416692 original size:15 final size:16
Alignment explanation
Indices: 416650--416695 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
416640 ATTAGTTGTT
*
416650 ATTTAAAAATTT-TAG
1 ATTTTAAAATTTATAG
*
416665 ATATTAAATATTTATA-
1 ATTTTAAA-ATTTATAG
416681 ATTTTAAAATTTATA
1 ATTTTAAAATTTATA
416696 TTTATATATA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 13 0.50
16 11 0.42
17 2 0.08
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (16 bp):
ATTTTAAAATTTATAG
Found at i:421409 original size:51 final size:51
Alignment explanation
Indices: 421330--421497 Score: 205
Period size: 51 Copynumber: 3.3 Consensus size: 51
421320 GAAATAACCA
** *
421330 GGTTGGAGTATCCCTAATTAT-AGAAAATTGGTGTTTTGAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGA-AAAATTGGTGTTTTGAAAATAAAATCGG
* ** * * *
421381 GGTTAGAGTATCTTCGATTGTGAGAAATTGGTGTTTTGGAAATAAAATCGA
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAAATAAAATCGG
* *
421432 AGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTT-AGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGA-AAATAAAATCGG
421483 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
421498 TCAGAAATAA
Statistics
Matches: 97, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
51 96 0.99
52 1 0.01
ACGTcount: A:0.32, C:0.10, G:0.26, T:0.33
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAAATAAAATCGG
Found at i:421511 original size:28 final size:28
Alignment explanation
Indices: 421480--421553 Score: 98
Period size: 28 Copynumber: 2.7 Consensus size: 28
421470 GAAATAAAAT
421480 CGGGGTTGGAGTATCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCC-CATGAAATAA
* * *
421508 CGGGATTGGAGTATCCCCGATGACATAA
1 CGGGGTTGGAGTATCCCCCATGAAATAA
421536 CGGGGTTGGAGTA-CCCCC
1 CGGGGTTGGAGTATCCCCC
421554 GATTATGAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
27 5 0.12
28 35 0.88
ACGTcount: A:0.24, C:0.24, G:0.31, T:0.20
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCCATGAAATAA
Found at i:421625 original size:108 final size:108
Alignment explanation
Indices: 421433--421872 Score: 350
Period size: 108 Copynumber: 4.1 Consensus size: 108
421423 TAAAATCGAA
*** * *
421433 GTTGGAGTATCCCCGATTGTG-AAAAATTGGTATTTTAGAAATAAAATCGGGGTTGGAGTATCCC
1 GTTGGAGTATCCCCGATTGTGAAAAAATCAATATTTTAGAAATAAAACCGAGGTTGGAGTATCCC
* *
421497 CTCAGAAATAACGGGATTGGAGTATCCCCGATGACATAACGGG
66 CTCAGAAATAACGGGATTGGAGTATCCCCAATGAAATAACGGG
* * * *
421540 GTTGGAGTACCCCCGATTATGAAAAAATCAATATTTTAGATATAAAGCCGAGGTTGGAGTATCCC
1 GTTGGAGTATCCCCGATTGTGAAAAAATCAATATTTTAGAAATAAAACCGAGGTTGGAGTATCCC
* *
421605 CTC-GAAAATAACGGGGTTGGAGTATCCCTAATGAAATAACGGG
66 CTCAG-AAATAACGGGATTGGAGTATCCCCAATGAAATAACGGG
* *** * * * *
421648 GTTGGAGTATCCCCAATTGTG-AAAAATTGGTGTTTTGGAAATAAAATCGAAGTTGGAGTAT--C
1 GTTGGAGTATCCCCGATTGTGAAAAAATCAATATTTTAGAAATAAAACCGAGGTTGGAGTATCCC
** * * * **** * *
421710 CTC-G--ATTGCGGTAAATCGATGCT-TTAGAAAT-AAA-ATCGGA
66 CTCAGAAATAACGG-GATTGGA-G-TATCCCCAATGAAATAACGGG
* ** ** * *
421750 GTTGGAGTATCCTCGATTAAG-AAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCC
1 GTTGGAGTATCCCCGATTGTGAAAAAATCAATATTTTAGAAATAAAACCGAGGTTGGAGTAT-CC
* * *
421814 CCTCAAAAATAACAGGG-TTGGAGTATTCCCGATGAAAT-ACGGG
65 CCTCAGAAATAAC-GGGATTGGAGTATCCCCAATGAAATAACGGG
421857 GTTGGAGTATCCCCGA
1 GTTGGAGTATCCCCGA
421873 GATGAAATCC
Statistics
Matches: 259, Mismatches: 59, Indels: 30
0.74 0.17 0.09
Matches are distributed among these distances:
102 61 0.24
103 6 0.02
104 5 0.02
105 11 0.04
106 5 0.02
107 75 0.29
108 94 0.36
109 2 0.01
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (108 bp):
GTTGGAGTATCCCCGATTGTGAAAAAATCAATATTTTAGAAATAAAACCGAGGTTGGAGTATCCC
CTCAGAAATAACGGGATTGGAGTATCCCCAATGAAATAACGGG
Found at i:421631 original size:28 final size:28
Alignment explanation
Indices: 421591--421661 Score: 101
Period size: 28 Copynumber: 2.5 Consensus size: 28
421581 ATAAAGCCGA
*
421591 GGTTGGAGTATCCCCT-CGAAAATAACGG
1 GGTTGGAGTATCCCCTAAG-AAATAACGG
421619 GGTTGGAGTAT-CCCTAATGAAATAACGG
1 GGTTGGAGTATCCCCTAA-GAAATAACGG
421647 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
421662 AATTGTGAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
27 4 0.10
28 31 0.79
29 4 0.10
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.24
Consensus pattern (28 bp):
GGTTGGAGTATCCCCTAAGAAATAACGG
Found at i:421740 original size:51 final size:51
Alignment explanation
Indices: 421648--421812 Score: 177
Period size: 51 Copynumber: 3.2 Consensus size: 51
421638 AAATAACGGG
* * ** * * * * *
421648 GTTGGAGTATCCCCAATTGTGAAAAATTGGTGTTTTGGAAATAAAATCGAA
1 GTTGGAGTATCCTCGATTAAGAAAAATCGATGCTTTAGAAATAAAATCGGA
** **
421699 GTTGGAGTATCCTCGATTGCGGTAAATCGATGCTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCTCGATTAAGAAAAATCGATGCTTTAGAAATAAAATCGGA
* * * *
421750 GTTGGAGTATCCTCGATTAAGAAAAATTGATGTTTTAGAAATAAAACCGGG
1 GTTGGAGTATCCTCGATTAAGAAAAATCGATGCTTTAGAAATAAAATCGGA
421801 GTTGGAGTATCC
1 GTTGGAGTATCC
421813 CCCTCAAAAA
Statistics
Matches: 96, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 96 1.00
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (51 bp):
GTTGGAGTATCCTCGATTAAGAAAAATCGATGCTTTAGAAATAAAATCGGA
Found at i:421898 original size:41 final size:41
Alignment explanation
Indices: 421841--421961 Score: 233
Period size: 41 Copynumber: 3.0 Consensus size: 41
421831 TTGGAGTATT
421841 CCCGATGAAATACGGGGTTGGAGTATCCCCGAGATGAAATC
1 CCCGATGAAATACGGGGTTGGAGTATCCCCGAGATGAAATC
421882 CCCGATGAAATACGGGGTTGGAGTATCCCCGAGATGAAATC
1 CCCGATGAAATACGGGGTTGGAGTATCCCCGAGATGAAATC
*
421923 CCCGATGAAATACGGGGTTGGAGTATCCCTGAGATGAAA
1 CCCGATGAAATACGGGGTTGGAGTATCCCCGAGATGAAA
421962 AATCTAGAAA
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
41 79 1.00
ACGTcount: A:0.30, C:0.21, G:0.30, T:0.20
Consensus pattern (41 bp):
CCCGATGAAATACGGGGTTGGAGTATCCCCGAGATGAAATC
Found at i:424264 original size:20 final size:19
Alignment explanation
Indices: 424239--424354 Score: 151
Period size: 20 Copynumber: 5.8 Consensus size: 19
424229 AAAAATGCCT
* *
424239 AAATGTATTGATACATTGTA
1 AAATGTATCGATACAATG-A
424259 AAATGTATCGATACAATGA
1 AAATGTATCGATACAATGA
*
424278 GCAATGTATCGATACAATGCA
1 -AAATGTATCGATACAATG-A
424299 AAATGTATCGATACAATGCA
1 AAATGTATCGATACAATG-A
*
424319 AAATGTATCAATACAATGA
1 AAATGTATCGATACAATGA
424338 ACAATGTATCGATACAA
1 A-AATGTATCGATACAA
424355 ATTTTGAAAA
Statistics
Matches: 87, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
19 3 0.03
20 83 0.95
21 1 0.01
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.28
Consensus pattern (19 bp):
AAATGTATCGATACAATGA
Found at i:424333 original size:60 final size:60
Alignment explanation
Indices: 424239--424354 Score: 187
Period size: 60 Copynumber: 1.9 Consensus size: 60
424229 AAAAATGCCT
* * * * *
424239 AAATGTATTGATACATTGTAAAATGTATCGATACAATGAGCAATGTATCGATACAATGCA
1 AAATGTATCGATACAATGCAAAATGTATCAATACAATGAACAATGTATCGATACAATGCA
424299 AAATGTATCGATACAATGCAAAATGTATCAATACAATGAACAATGTATCGATACAA
1 AAATGTATCGATACAATGCAAAATGTATCAATACAATGAACAATGTATCGATACAA
424355 ATTTTGAAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 51 1.00
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.28
Consensus pattern (60 bp):
AAATGTATCGATACAATGCAAAATGTATCAATACAATGAACAATGTATCGATACAATGCA
Found at i:425055 original size:41 final size:41
Alignment explanation
Indices: 424943--425057 Score: 112
Period size: 41 Copynumber: 2.8 Consensus size: 41
424933 AATGGAAGGG
* * *
424943 GTGTCCCACTTTTTGAGGACAAAGG-AAAAGAGAATGAAATA
1 GTGTCCTACTTCTTGAGGACAAAGGAAAAAGA-AAAGAAATA
* * *
424984 G-GTCTTGC-TCTTTGTGGACAAAGGAGAAAAGAAAAGAAA-A
1 GTGTCCTACTTC-TTGAGGACAAAGGA-AAAAGAAAAGAAATA
425024 GTGTCCTACTTCTTGAGGACAAAGTGAAAAAGAA
1 GTGTCCTACTTCTTGAGGACAAAG-GAAAAAGAA
425058 TACGTCCTGC
Statistics
Matches: 59, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
39 1 0.02
40 18 0.31
41 30 0.51
42 10 0.17
ACGTcount: A:0.41, C:0.12, G:0.25, T:0.22
Consensus pattern (41 bp):
GTGTCCTACTTCTTGAGGACAAAGGAAAAAGAAAAGAAATA
Found at i:425136 original size:42 final size:41
Alignment explanation
Indices: 425060--425175 Score: 135
Period size: 42 Copynumber: 2.7 Consensus size: 41
425050 AAAAAGAATA
* *
425060 CGTCCTGCTTTTCGAGGATAAAGGAAAAAAGGAAAATGAAA-TG
1 CGTCCTGCTTTT-GAGGACAAAAG-AAAAAGGAAAAT-AAAGTG
*
425103 CGTCCTGCTCTTTGAGGACAAAAGAAAGAGGAAAATAAAGTG
1 CGTCCTGCT-TTTGAGGACAAAAGAAAAAGGAAAATAAAGTG
*
425145 CGTCCTGTTTTTTGAGGACAAAAGAGAAAAG
1 CGTCCTG-CTTTTGAGGACAAAAGA-AAAAG
425176 AAGGTAATGA
Statistics
Matches: 64, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
41 3 0.05
42 35 0.55
43 23 0.36
44 3 0.05
ACGTcount: A:0.40, C:0.13, G:0.26, T:0.22
Consensus pattern (41 bp):
CGTCCTGCTTTTGAGGACAAAAGAAAAAGGAAAATAAAGTG
Found at i:425321 original size:61 final size:60
Alignment explanation
Indices: 425242--425542 Score: 275
Period size: 61 Copynumber: 5.1 Consensus size: 60
425232 TTGCACTTCA
* * * ** *
425242 AGGACTAAAAACTACCACCAACTCATGTGGGCTTTGAAAAAAAAAGGCATCCTGCTCTTTG
1 AGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAAAAAAGGCGTCCTGCTCTTTG
* * * * * *
425303 AGGACTAGAAGGTGCCACCAACTCGAGTGGTCTTTAAAAGGAGAAA-GCATCCTGCTCTTTG
1 AGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAA--AAAAAGGCGTCCTGCTCTTTG
* * * * * *
425364 AGGACTGGAAAATGCCACCCACTTGTGTGGGCTTT-----GAAAGGCGTCATACTCTTTG
1 AGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAAAAAGGCGTCCTGCTCTTTG
* * *
425419 AGGACTGGAAAATGCCA-CACACTTGTGTGGGCTTTAAAAGAAAAAGGTGTCCTGCTCTTTG
1 AGGACTAGAAAGTGCCACCA-ACTTGTGTGGGCTTTAAAA-AAAAAGGCGTCCTGCTCTTTG
425480 AGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT-----AAAAGGCGTCCTGCTCTTTG
1 AGGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAAAAAAGGCGTCCTGCTCTTTG
425536 AGGACTA
1 AGGACTA
425543 AAGGGCAAAA
Statistics
Matches: 202, Mismatches: 26, Indels: 29
0.79 0.10 0.11
Matches are distributed among these distances:
54 5 0.02
55 44 0.22
56 26 0.13
60 4 0.02
61 94 0.47
62 27 0.13
63 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (60 bp):
AGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAAAAAGGCGTCCTGCTCTTTG
Found at i:425428 original size:55 final size:55
Alignment explanation
Indices: 425352--425541 Score: 254
Period size: 55 Copynumber: 3.3 Consensus size: 55
425342 GGAGAAAGCA
425352 TCCTGCTCTTTGAGGACTGGAAAATGCCACCCACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCCACTTGTGTGGGCTTTGAAAGGCG
* * * *
425407 TCATACTCTTTGAGGACTGGAAAATGCCACACACTTGTGTGGGCTTTAAAAGAAAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCCACTTGTGTGGGCTTT----G--AAAGGCG
* * *
425468 TCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCCACTTGTGTGGGCTTTGAAAGGCG
425524 TCCTGCTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
425542 AAAGGGCAAA
Statistics
Matches: 117, Mismatches: 11, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
55 44 0.38
56 24 0.21
59 1 0.01
61 27 0.23
62 21 0.18
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCCACTTGTGTGGGCTTTGAAAGGCG
Found at i:425540 original size:117 final size:116
Alignment explanation
Indices: 425283--425542 Score: 344
Period size: 116 Copynumber: 2.2 Consensus size: 116
425273 CTTTGAAAAA
* ** * *
425283 AAAAGGCATCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTCGAGTGGTCTTTAAAAGGAGAA
1 AAAAGGCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTCGAGTGGGCTTTAAAAGGAAAA
* *
425348 AGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCCACTTGTGTGGGCTTT
66 AGCATCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT
* * * * * *
425399 GAAAGGCGTCATACTCTTTGAGGACTGGAAAATGCCA-CACACTTGTGTGGGCTTTAAAA-GAAA
1 AAAAGGCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCA-ACTCGAGTGGGCTTTAAAAGGAAA
**
425462 AAGGTGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT
65 AA-GCATCCTGCTCTTTGAGGACTAGAAAA-TGCCACCAACTTGTGTGGGCTTT
425516 AAAAGGCGTCCTGCTCTTTGAGGACTA
1 AAAAGGCGTCCTGCTCTTTGAGGACTA
425543 AAGGGCAAAA
Statistics
Matches: 122, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
115 7 0.06
116 70 0.57
117 45 0.37
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (116 bp):
AAAAGGCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTCGAGTGGGCTTTAAAAGGAAAA
AGCATCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT
Found at i:425707 original size:217 final size:210
Alignment explanation
Indices: 425338--425968 Score: 826
Period size: 217 Copynumber: 3.0 Consensus size: 210
425328 AGTGGTCTTT
* * * * * * *
425338 AAAAGGAGA-AAGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCCACTTGTGTGGGCTTTGAA
1 AAAAGGAGAGAA-CGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTCGAGTGGGCTTTAAA
* * * * * *
425402 AGGCGTCATACTCTTTGAGGACTGGAAAATGCCACACACTTGTGTGGGCTTTAAAAGAAAAAGGT
65 AGACATCCTACTCTTTGAGGACTAGAAAATGCCACCCACTTGTGTGGGCTTTAAAAGAAAAA-GC
425467 GTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTC
129 GTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTC
425532 TTTGAGGACTAAAGGGC
194 TTTGAGGACTAAAGGGC
*
425549 AAAAGGAGAGAACGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTCGAGTGGTCTTTAAAA
1 AAAAGGAGAGAACGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTCGAGTGGGCTTT-AAA
* * * *
425614 GGAGAAAACATCCTGCTTTTTGAGGACTAGAAAATACCACCCACTTGTGTGGGTTTTAAAAGGAA
65 --AG---ACATCCTACTCTTTGAGGACTAGAAAATGCCACCCACTTGTGTGGGCTTTAAAA-GAA
* * *
425679 AAAGCGTCCTGCTTTTTGAGGACTAGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCT
124 AAAGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCC
*
425744 TACTCTTTGAGGACTAAAGGGC
189 TGCTCTTTGAGGACTAAAGGGC
* * *
425766 AAAAGGAGAGAGCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAA
1 AAAAGGAGAGAACGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTCGAGTGGGCTTTAAAA
* * * *
425831 GACGTCCTACTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGCGT
66 GACATCCTACTCTTTGAGGACTAGAAAATGCCACCCACTTGTGTGGGCTTTAAAAGAAAAAGCGT
* * * *
425891 CCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATTCTGCTCTT
131 CCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTT
425955 TGAGGACTGAAAGG
196 TGAGGACT-AAAGG
425969 TGCCACCAAC
Statistics
Matches: 369, Mismatches: 42, Indels: 24
0.85 0.10 0.06
Matches are distributed among these distances:
204 48 0.13
205 28 0.08
206 1 0.00
211 94 0.25
212 4 0.01
214 4 0.01
216 3 0.01
217 181 0.49
218 6 0.02
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.26
Consensus pattern (210 bp):
AAAAGGAGAGAACGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTCGAGTGGGCTTTAAAA
GACATCCTACTCTTTGAGGACTAGAAAATGCCACCCACTTGTGTGGGCTTTAAAAGAAAAAGCGT
CCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTT
TGAGGACTAAAGGGC
Found at i:425738 original size:62 final size:61
Alignment explanation
Indices: 425549--425738 Score: 247
Period size: 61 Copynumber: 3.1 Consensus size: 61
425539 ACTAAAGGGC
* * * * * * * *
425549 AAAAGGAGAGAACGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTCGAGTGGTCTTT
1 AAAAGGAGAAAACGTCCTGCTTTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT
* * * *
425610 AAAAGGAGAAAACATCCTGCTTTTTGAGGACTAGAAAATACCACCCACTTGTGTGGGTTTT
1 AAAAGGAGAAAACGTCCTGCTTTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT
425671 AAAAGGA-AAAAGCGTCCTGCTTTTTGAGGACTAGAAAAATGCCACCAACTTGTGTGGGCTTT
1 AAAAGGAGAAAA-CGTCCTGCTTTTTGAGGACTAG-AAAATGCCACCAACTTGTGTGGGCTTT
425733 AAAAGG
1 AAAAGG
425739 CGTCTTACTC
Statistics
Matches: 111, Mismatches: 16, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
60 4 0.04
61 77 0.69
62 30 0.27
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (61 bp):
AAAAGGAGAAAACGTCCTGCTTTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT
Found at i:425842 original size:94 final size:95
Alignment explanation
Indices: 425671--425855 Score: 291
Period size: 94 Copynumber: 2.0 Consensus size: 95
425661 TGTGGGTTTT
*
425671 AAAAGGAAAAAGCGTCCTGCTTTTTGAGGACTAGAAAAATGCCACCAACTTGTGTGGGCTTTAAA
1 AAAAGGAAAAAGCGTCCTGCTCTTTGAGGACTAGAAAAATGCCACCAACTTGTGTGGGCTTTAAA
* *
425736 AGGCGTCTTACTCTTTGAGGACTAAAGGGC
66 AGACGTCCTACTCTTTGAGGACTAAAGGGC
* * ** *
425766 AAAAGGAGAGAGCGTCCTGCTCTTTGAGGACT-GGGAAGTGCCACCAACTTGTGTGGGCTTTAAA
1 AAAAGGAAAAAGCGTCCTGCTCTTTGAGGACTAGAAAAATGCCACCAACTTGTGTGGGCTTTAAA
425830 AGACGTCCTACTCTTTGAGGACTAAA
66 AGACGTCCTACTCTTTGAGGACTAAA
425856 AAATGCCACC
Statistics
Matches: 82, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
94 53 0.65
95 29 0.35
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (95 bp):
AAAAGGAAAAAGCGTCCTGCTCTTTGAGGACTAGAAAAATGCCACCAACTTGTGTGGGCTTTAAA
AGACGTCCTACTCTTTGAGGACTAAAGGGC
Found at i:425863 original size:55 final size:55
Alignment explanation
Indices: 425777--426017 Score: 374
Period size: 55 Copynumber: 4.4 Consensus size: 55
425767 AAAGGAGAGA
** *
425777 GCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
* * * *
425832 ACGTCCTACTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
*
425887 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
* * *
425942 GCATTCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
*
425997 GCGTCCTGCTTTTTGAGGACT
1 GCGTCCTGCTCTTTGAGGACT
426018 AAAGGGTGAA
Statistics
Matches: 169, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 169 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.29
Consensus pattern (55 bp):
GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
Found at i:426050 original size:204 final size:205
Alignment explanation
Indices: 425833--426227 Score: 650
Period size: 204 Copynumber: 1.9 Consensus size: 205
425823 CTTTAAAAGA
* * *
425833 CGTCCTACTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTC
1 CGTCCTACTCTTTGAGGACCAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTACTC
* ** ** *
425898 TTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATTC-TGCTCTTTGAGGAC
66 TTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAAC-GTCATGCTCTTTGAGGAC
*
425962 TGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTTTTTGAGGACT-AAAGGGTG
130 TGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGGTG
426026 AAAGGAGAGAG
195 AAAGGAGAGAG
* * *
426037 CGTCCTGCTCTTTGAGGACCAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTACTC
1 CGTCCTACTCTTTGAGGACCAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTACTC
426102 TTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAACGTCATGCTCTTTGAGGACT
66 TTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAACGTCATGCTCTTTGAGGACT
426167 GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGAAAGG
131 GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGAAAGG
426228 TGCCACCAAC
Statistics
Matches: 176, Mismatches: 13, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
203 2 0.01
204 169 0.96
205 5 0.03
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (205 bp):
CGTCCTACTCTTTGAGGACCAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTACTC
TTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAACGTCATGCTCTTTGAGGACT
GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGGTGA
AAGGAGAGAG
Found at i:426103 original size:55 final size:55
Alignment explanation
Indices: 426036--426271 Score: 334
Period size: 55 Copynumber: 4.3 Consensus size: 55
426026 AAAGGAGAGA
426036 GCGTCCTGCTCTTTGAGGACCAGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGA-CAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
* **
426091 GCGTCCTACTCTTTGAGGACTA-AAAAATGCCACCAACTTGTGTGGGCTTTGAAAA-
1 GCGTCCTGCTCTTTGAGGAC-AGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAG
* * * *
426146 ACGTCATGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
* *
426201 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
*
426256 GCATCCTGCTCTTTGA
1 GCGTCCTGCTCTTTGA
426272 CGACTAAAGG
Statistics
Matches: 164, Mismatches: 12, Indels: 10
0.88 0.06 0.05
Matches are distributed among these distances:
54 7 0.04
55 153 0.93
56 4 0.02
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (55 bp):
GCGTCCTGCTCTTTGAGGACAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
Found at i:426161 original size:149 final size:150
Alignment explanation
Indices: 425887--426279 Score: 450
Period size: 149 Copynumber: 2.5 Consensus size: 150
425877 GCTTTGAAAG
* * * *
425887 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATTCTGCT
1 GCGTCCTGCTCTTTGAGGACAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTACT
* ** ** * *
425952 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTTTTTGAGGAC
66 CTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAACGTCATGCTCTTTGAGGAC
426017 T-AAAGGGTGAAAGGAGAGA
131 TGAAAGGGTGAAAGGAGAGA
*
426036 GCGTCCTGCTCTTTGAGGACCAGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTAC
1 GCGTCCTGCTCTTTGAGGA-CAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTAC
426100 TCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAACGTCATGCTCTTTGAGGA
65 TCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAACGTCATGCTCTTTGAGGA
* *
426165 CTGAAA-GGTGCCACCAACTTGTGTGGGCTTTGAAA
130 CTGAAAGGGTG--A--AA--------GG---AGAGA
* * *
426200 GGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGC
1 -GCGTCCTGCTCTTTGAGGACAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTAC
*
426265 TCTTTGACGACTAAA
65 TCTTTGAGGACTAAA
426280 GGGTGAAAGG
Statistics
Matches: 206, Mismatches: 19, Indels: 22
0.83 0.08 0.09
Matches are distributed among these distances:
149 117 0.57
150 8 0.04
151 1 0.00
153 2 0.01
161 2 0.01
164 8 0.04
165 68 0.33
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (150 bp):
GCGTCCTGCTCTTTGAGGACAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTACT
CTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAACGTCATGCTCTTTGAGGAC
TGAAAGGGTGAAAGGAGAGA
Found at i:426235 original size:110 final size:110
Alignment explanation
Indices: 426037--426281 Score: 368
Period size: 110 Copynumber: 2.2 Consensus size: 110
426027 AAGGAGAGAG
*
426037 CGTCCTGCTCTTTGAGGACCAGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTACT
1 CGTCCTGCTCTTTGAGGA-CTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTACT
426101 CTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAA
65 CTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAA
* * *
426147 CGTCATGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTC
1 CGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTACTC
* ** **
426212 TTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
66 TTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAA
* *
426257 CATCCTGCTCTTTGACGACT-AAAGG
1 CGTCCTGCTCTTTGAGGACTGAAAGG
426282 GTGAAAGGAG
Statistics
Matches: 122, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
109 10 0.08
110 112 0.92
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (110 bp):
CGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTACTC
TTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAA
Found at i:426350 original size:259 final size:258
Alignment explanation
Indices: 425682--426350 Score: 1122
Period size: 259 Copynumber: 2.6 Consensus size: 258
425672 AAAGGAAAAA
* ** * * *
425682 GCGTCCTGCTTTTTGAGGACTAGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCTTAC
1 GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGC
** *
425747 TCTTTGAGGACTAAAGGGCAAAAGGAGAGAGCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCA
65 TCTTTGAGGACTAAAGGGTGAAAGGAGAGAGCGTCCTGCTCTTTGAGGACT-AGAAGTGCCACCA
*
425812 ACTTGTGTGGGCTTTAAAAGACGTCCTACTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGG
129 ACTTGTGTGGGCTTTAAAAGGCGTCCTACTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGG
** *
425877 GCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
194 GCTTTGAAAAACGTCATGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
* *
425942 GCATTCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCT
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCT
* *
426007 TTTTGAGGACTAAAGGGTGAAAGGAGAGAGCGTCCTGCTCTTTGAGGACCAGAAAGTGCCACCAA
66 CTTTGAGGACTAAAGGGTGAAAGGAGAGAGCGTCCTGCTCTTTGAGGACTAG-AAGTGCCACCAA
426072 CTTGTGTGGGCTTTAAAAGGCGTCCTACTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGG
130 CTTGTGTGGGCTTTAAAAGGCGTCCTACTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGG
426137 CTTTGAAAAACGTCATGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
195 CTTTGAAAAACGTCATGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
*
426201 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCT
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCT
* *
426266 CTTTGACGACTAAAGGGTGAAAGGAGAGAGCGTCCTGCTTTTTGAGGACTAGAAGGTGCCACCAA
66 CTTTGAGGACTAAAGGGTGAAAGGAGAGAGCGTCCTGCTCTTTGAGGACTAGAA-GTGCCACCAA
426331 CTTGTGTGGGCTTTAAAAGG
130 CTTGTGTGGGCTTTAAAAGG
426351 AAAAGGCATC
Statistics
Matches: 383, Mismatches: 24, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
258 3 0.01
259 362 0.95
260 18 0.05
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (258 bp):
GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCT
CTTTGAGGACTAAAGGGTGAAAGGAGAGAGCGTCCTGCTCTTTGAGGACTAGAAGTGCCACCAAC
TTGTGTGGGCTTTAAAAGGCGTCCTACTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGC
TTTGAAAAACGTCATGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
Found at i:427377 original size:1 final size:1
Alignment explanation
Indices: 427367--427417 Score: 57
Period size: 1 Copynumber: 51.0 Consensus size: 1
427357 CTTTTCTCTC
* * * * *
427367 TTTTTCTTTTTTTTTTTGTTTTTTTTTGTTTTTTTTTTGTTGTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
427418 AAAAGGAATG
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.00, C:0.02, G:0.08, T:0.90
Consensus pattern (1 bp):
T
Found at i:427383 original size:22 final size:22
Alignment explanation
Indices: 427353--427404 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
427343 AAACATGTTC
*
427353 TTTTCTTTTCTCTCTTTTTCTT
1 TTTTTTTTTCTCTCTTTTTCTT
* * * *
427375 TTTTTTTTTGTTTTTTTTTGTT
1 TTTTTTTTTCTCTCTTTTTCTT
427397 TTTTTTTT
1 TTTTTTTT
427405 GTTGTTTTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.00, C:0.10, G:0.04, T:0.87
Consensus pattern (22 bp):
TTTTTTTTTCTCTCTTTTTCTT
Found at i:427388 original size:11 final size:11
Alignment explanation
Indices: 427374--427416 Score: 70
Period size: 11 Copynumber: 3.9 Consensus size: 11
427364 CTCTTTTTCT
427374 TTTTTTTTTTG
1 TTTTTTTTTTG
427385 -TTTTTTTTTG
1 TTTTTTTTTTG
427395 TTTTTTTTTTG
1 TTTTTTTTTTG
427406 TTGTTTTTTTT
1 TT-TTTTTTTT
427417 TAAAAGGAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.33
11 12 0.40
12 8 0.27
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (11 bp):
TTTTTTTTTTG
Found at i:427391 original size:21 final size:22
Alignment explanation
Indices: 427374--427415 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 22
427364 CTCTTTTTCT
427374 TTTTTTTTTTGTT-TTTTTTTG
1 TTTTTTTTTTGTTGTTTTTTTG
427395 TTTTTTTTTTGTTGTTTTTTT
1 TTTTTTTTTTGTTGTTTTTTT
427416 TTAAAAGGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (22 bp):
TTTTTTTTTTGTTGTTTTTTTG
Found at i:439921 original size:51 final size:49
Alignment explanation
Indices: 439859--440026 Score: 203
Period size: 51 Copynumber: 3.3 Consensus size: 49
439849 AAAATAACCA
* *
439859 GGTTGGAGTATCCCTAATTATAGAAAATTGGTGTTTTGAAAATAAAATCAG
1 GGTTGGAGTATCCCCAATTGT-GAAAATTGGTGTTTTGAAAATAAAATC-G
* *
439910 GGTTGGAGTATCCCCGATTGTGAGAAATTGGTGTTTTGAAGATAAAATCG
1 GGTTGGAGTATCCCCAATTGTGA-AAATTGGTGTTTTGAAAATAAAATCG
* * *
439960 GAGTTGGAGTATCCCCAGTTGTGAAAAATTGGTATTTT-AGAAATAAAATTGG
1 G-GTTGGAGTATCCCCAATTGTG-AAAATTGGTGTTTTGA-AAATAAAA-TCG
440012 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
440027 TCGGAAATAA
Statistics
Matches: 103, Mismatches: 9, Indels: 10
0.84 0.07 0.08
Matches are distributed among these distances:
50 5 0.05
51 94 0.91
52 4 0.04
ACGTcount: A:0.32, C:0.10, G:0.26, T:0.32
Consensus pattern (49 bp):
GGTTGGAGTATCCCCAATTGTGAAAATTGGTGTTTTGAAAATAAAATCG
Found at i:440122 original size:108 final size:108
Alignment explanation
Indices: 439992--440202 Score: 273
Period size: 108 Copynumber: 2.0 Consensus size: 108
439982 GAAAAATTGG
** ** *
439992 TATTTTAGAAATAAAATTGGGGTTGGAGTATCCCCTCGGAAATAACGGGATTGGAGTATC-CCTG
1 TATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCAAAAATAACGGGATTGGAGTATCTCCTC
* * *
440056 ATGACATAACGGGGTTGGAGTA-CCCTCGATTATGAAAAAATCAA
66 A-GAAATAACGGGGTTGAAGTATCCC-CAATTATGAAAAAATCAA
* * * *
440100 TATTTTAGATATAAAGCCGGGGTTGGAGTATCTCCTCAAAAATAACGGGGTTGGAGTATCTCCTC
1 TATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCAAAAATAACGGGATTGGAGTATCTCCTC
*
440165 AGAAATAACGGGGTTGAAGTATCCCCAATTGTGAAAAA
66 AGAAATAACGGGGTTGAAGTATCCCCAATTATGAAAAA
440203 TTGGTGTTTT
Statistics
Matches: 88, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
108 81 0.92
109 7 0.08
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (108 bp):
TATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCAAAAATAACGGGATTGGAGTATCTCCTC
AGAAATAACGGGGTTGAAGTATCCCCAATTATGAAAAAATCAA
Found at i:440157 original size:28 final size:28
Alignment explanation
Indices: 440117--440187 Score: 124
Period size: 28 Copynumber: 2.5 Consensus size: 28
440107 GATATAAAGC
440117 CGGGGTTGGAGTATCTCCTCAAAAATAA
1 CGGGGTTGGAGTATCTCCTCAAAAATAA
*
440145 CGGGGTTGGAGTATCTCCTCAGAAATAA
1 CGGGGTTGGAGTATCTCCTCAAAAATAA
*
440173 CGGGGTTGAAGTATC
1 CGGGGTTGGAGTATC
440188 CCCAATTGTG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (28 bp):
CGGGGTTGGAGTATCTCCTCAAAAATAA
Found at i:440240 original size:51 final size:50
Alignment explanation
Indices: 440177--440343 Score: 172
Period size: 51 Copynumber: 3.3 Consensus size: 50
440167 AAATAACGGG
* * * *
440177 GTTGAAGTATCCCCAATTGTGAAAAATTGGTGTTTTGGAAATAAAATCATA
1 GTTGGAGTATCCCCAATTATGAAAAATTGATGTTTTAGAAATAAAATCA-A
** * *
440228 GTTGGAGTATCCCCAATTATGGTAAATCGATGCTTTAGAAATAAAATCGAA
1 GTTGGAGTATCCCCAATTATGAAAAATTGATGTTTTAGAAATAAAATC-AA
* ** * * **
440279 GTTGGAATATCCCTGATTAAGAAAAATTGATGTTTTAGAAATAAAACCGGG
1 GTTGGAGTATCCCCAATTATGAAAAATTGATGTTTTAGAAATAAAATC-AA
440330 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
440344 CTCGGAAATA
Statistics
Matches: 94, Mismatches: 21, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
51 93 0.99
52 1 0.01
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.31
Consensus pattern (50 bp):
GTTGGAGTATCCCCAATTATGAAAAATTGATGTTTTAGAAATAAAATCAA
Found at i:442728 original size:20 final size:20
Alignment explanation
Indices: 442700--442754 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
442690 AAAATGCGTG
* *
442700 AATGCATCGATACATTGTAA
1 AATGTATCGATACATTGCAA
*
442720 AATGTATCGATACAATGCAA
1 AATGTATCGATACATTGCAA
442740 AATGTATCGATACAT
1 AATGTATCGATACAT
442755 ATTGTATCGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.29
Consensus pattern (20 bp):
AATGTATCGATACATTGCAA
Found at i:449920 original size:25 final size:25
Alignment explanation
Indices: 449892--449944 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
449882 AAAATATCAT
* *
449892 GGCCTAAAATTACCATCAAGCCTTA
1 GGCCCAAAATTACAATCAAGCCTTA
* * *
449917 GGCCCAAATTTATAATCAAGCTTTA
1 GGCCCAAAATTACAATCAAGCCTTA
449942 GGC
1 GGC
449945 TTAATAACCA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (25 bp):
GGCCCAAAATTACAATCAAGCCTTA
Found at i:451201 original size:20 final size:20
Alignment explanation
Indices: 451172--451253 Score: 82
Period size: 20 Copynumber: 4.1 Consensus size: 20
451162 GTAGTTACCC
451172 TTCA-AATGTATCGATACACA
1 TTCAGAATGTATCGATACA-A
451192 -T-AGGAATGTATCGATACAA
1 TTCA-GAATGTATCGATACAA
451211 TTCCAGAATGTATCGATAC-A
1 TT-CAGAATGTATCGATACAA
* *
451231 TCCAGAATTGTATTGATACAA
1 TTCAGAA-TGTATCGATACAA
451252 TT
1 TT
451254 ATCCCAACGA
Statistics
Matches: 52, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
18 1 0.02
19 7 0.13
20 27 0.52
21 16 0.31
22 1 0.02
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.32
Consensus pattern (20 bp):
TTCAGAATGTATCGATACAA
Found at i:451221 original size:21 final size:21
Alignment explanation
Indices: 451195--451253 Score: 86
Period size: 21 Copynumber: 2.9 Consensus size: 21
451185 ATACACATAG
451195 GAATGTATCGATACAATTCCA
1 GAATGTATCGATACAATTCCA
451216 GAATGTATCGATAC-A-TCCA
1 GAATGTATCGATACAATTCCA
*
451235 GAATTGTATTGATACAATT
1 GAA-TGTATCGATACAATT
451254 ATCCCAACGA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
19 7 0.21
20 11 0.32
21 15 0.44
22 1 0.03
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.32
Consensus pattern (21 bp):
GAATGTATCGATACAATTCCA
Found at i:451243 original size:41 final size:41
Alignment explanation
Indices: 451176--451253 Score: 106
Period size: 41 Copynumber: 1.9 Consensus size: 41
451166 TTACCCTTCA
*
451176 AATGTATCGATACACATAGGAATGTATCGATACAATTCCAG
1 AATGTATCGATACACACAGGAATGTATCGATACAATTCCAG
*
451217 AATGTATCGATACATC-CA-GAATTGTATTGATACAATT
1 AATGTATCGATACA-CACAGGAA-TGTATCGATACAATT
451254 ATCCCAACGA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
40 3 0.09
41 29 0.88
42 1 0.03
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (41 bp):
AATGTATCGATACACACAGGAATGTATCGATACAATTCCAG
Found at i:454900 original size:79 final size:79
Alignment explanation
Indices: 454728--455627 Score: 1310
Period size: 79 Copynumber: 11.4 Consensus size: 79
454718 AAATAAAATC
* * * **
454728 GGGTTAGAGTATCCCCGATTATAAAAAAAATTGATGCTTTAGAAATAAGGGCCGGGGTTGGAGTA
1 GGGTTGGAGTATCCCCGATTAT--GAAAAATTGATGTTTTAGAAATAA-AACCGGGGTTGGAGTA
*
454793 TCCCCGT-GAAAATAAAG
63 TCCCC-TCGAAAATAACG
* * *
454810 GGGTTGAAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTTGAGTGTCC
1 GGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCC
*
454875 CCTCGGAAATAACG
66 CCTCGAAAATAACG
*
454889 GGTTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCC
1 GGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCC
*
454954 CCTCAAAAATAACG
66 CCTCGAAAATAACG
*
454968 GGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTAGAGTATCC
1 GGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCC
455033 CCTC-AGAAATAACG
66 CCTCGA-AAATAACG
**
455047 GGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATTGGGGTTGGAGTATCC
1 GGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCC
*
455112 CCTCGGAAATAACG
66 CCTCGAAAATAACG
* *
455126 GGGTTGGAGTATCCCCGATTATGAAAAATTAATGTTTTAGAGATAAAACCGGGGTTGGAGTATCC
1 GGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCC
455191 CCTCGAAAATAACG
66 CCTCGAAAATAACG
* * * ** *
455205 AGGG-TGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAACC---AATAGAGTATC
1 -GGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATC
455266 CCCTCGAAAATAACG
65 CCCTCGAAAATAACG
* * * * *
455281 AGGTTGGAGTATCCCCGATTATGAAAAATTGATATTTTAGAGATAAAACCGAGGTTAGAGTATCC
1 GGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCC
*
455346 CCTCAAAAATAACG
66 CCTCGAAAATAACG
* * * *
455360 GGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAACCGGGGTTAGAGTATCC
1 GGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCC
*
455425 CTTCGAAAATAACG
66 CCTCGAAAATAACG
* * *
455439 GGGTTGGAGTATCTCCGATTATGAAAAATTGATGTTTTAGAGATAAAACCGGGGTTGGAGTGTCC
1 GGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCC
*
455504 CCTCAAAAATAACG
66 CCTCGAAAATAACG
*
455518 GGGTGGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTA-CC
1 GGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCC
* *
455582 CCTCGGAAATAATG
66 CCTCGAAAATAACG
*
455596 GGGTTGGAGTATCCCCGATTGTGAAAAATTGA
1 GGGTTGGAGTATCCCCGATTATGAAAAATTGA
455628 GAAAATTAAA
Statistics
Matches: 745, Mismatches: 65, Indels: 20
0.90 0.08 0.02
Matches are distributed among these distances:
75 2 0.00
76 66 0.09
78 45 0.06
79 587 0.79
80 25 0.03
82 20 0.03
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (79 bp):
GGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCC
CCTCGAAAATAACG
Found at i:455507 original size:392 final size:393
Alignment explanation
Indices: 454728--455625 Score: 1349
Period size: 392 Copynumber: 2.3 Consensus size: 393
454718 AAATAAAATC
* * * **
454728 GGGTTAGAGTATCCCCGATTATAAAAAAAATTGATGCTTTAGAAATAAGGGCCGGGGTTGGAGTA
1 GGGTTGGAGTATCCCCGATTAT--GAAAAATTGATGTTTTAGAAATAA-AACCGGGGTTGGAGTA
* * *
454793 TCCCCGT-GAAAATAAAGGGGTTGAAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAA
63 TCCCC-TCGAAAATAAAGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAA
** * * *
454857 ACCGGGGTTTGAGTGTCCCCTCGGAAATAACGGGTTTGGAGTATCCCCGATTATGAAAAATTGAT
127 ACC--GAATAGAGTATCCCCTCGAAAATAACGGGTTTGGAGTATCCCCGATTATGAAAAATTGAT
* * *
454922 GTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGAT
190 ATTTTAGAAATAAAACCGAGGTTAGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGAT
* *
454987 TATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTAGAGTATCCCCTCAGAAATAACGGGGTT
255 TATGAAAAATTAATATTTTAGAAATAAAACCGGGGTTAGAGTATCCCCTCAGAAATAACGGGGTT
** *
455052 GGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATTGGGGTTGGAGTATCCCCTCG
320 GGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCA
*
455117 GAAATAACG
385 AAAATAACG
* *
455126 GGGTTGGAGTATCCCCGATTATGAAAAATTAATGTTTTAGAGATAAAACCGGGGTTGGAGTATCC
1 GGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCC
* *
455191 CCTCGAAAATAACGAGGG-TGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAACC
66 CCTCGAAAATAAAG-GGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACC
455255 -AATAGAGTATCCCCTCGAAAATAACGAGG-TTGGAGTATCCCCGATTATGAAAAATTGATATTT
130 GAATAGAGTATCCCCTCGAAAATAACG-GGTTTGGAGTATCCCCGATTATGAAAAATTGATATTT
*
455318 TAGAGATAAAACCGAGGTTAGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATTATG
194 TAGAAATAAAACCGAGGTTAGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATTATG
* *
455383 AGAAATTAATATTTTAGAAATAAAACCGGGGTTAGAGTATCCCTTC-GAAAATAACGGGGTTGGA
259 AAAAATTAATATTTTAGAAATAAAACCGGGGTTAGAGTATCCCCTCAG-AAATAACGGGGTTGGA
* * *
455447 GTATCTCCGATTATGAAAAATTGATGTTTTAGAGATAAAACCGGGGTTGGAGTGTCCCCTCAAAA
323 GTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCAAAA
455512 ATAACG
388 ATAACG
*
455518 GGGTGGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTA-CC
1 GGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCC
* * *
455582 CCTCGGAAATAATGGGGTTGGAGTATCCCCGATTGTGAAAAATT
66 CCTCGAAAATAAAGGGGTTGGAGTATCCCCGATTATGAAAAATT
455626 GAGAAAATTA
Statistics
Matches: 456, Mismatches: 39, Indels: 17
0.89 0.08 0.03
Matches are distributed among these distances:
390 3 0.01
391 39 0.09
392 297 0.65
393 2 0.00
394 1 0.00
395 70 0.15
396 23 0.05
398 21 0.05
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.27
Consensus pattern (393 bp):
GGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCC
CCTCGAAAATAAAGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCG
AATAGAGTATCCCCTCGAAAATAACGGGTTTGGAGTATCCCCGATTATGAAAAATTGATATTTTA
GAAATAAAACCGAGGTTAGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATTATGAA
AAATTAATATTTTAGAAATAAAACCGGGGTTAGAGTATCCCCTCAGAAATAACGGGGTTGGAGTA
TCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCAAAAATA
ACG
Found at i:457064 original size:35 final size:35
Alignment explanation
Indices: 456999--457120 Score: 212
Period size: 35 Copynumber: 3.5 Consensus size: 35
456989 CTCATTTTCG
*
456999 TCCATGCTTTCATTTTT-TA-TCCATGCCCATCAT
1 TCCATGCCTTCATTTTTATATTCCATGCCCATCAT
*
457032 TCCATACCTTCATTTTTATATTCCATGCCCATCAT
1 TCCATGCCTTCATTTTTATATTCCATGCCCATCAT
457067 TCCATGCCTTCATTTTTATATTCCATGCCCATCAT
1 TCCATGCCTTCATTTTTATATTCCATGCCCATCAT
457102 TCCATGCCTTCATTTTTAT
1 TCCATGCCTTCATTTTTAT
457121 TATTATTATT
Statistics
Matches: 84, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
33 15 0.18
34 2 0.02
35 67 0.80
ACGTcount: A:0.20, C:0.30, G:0.05, T:0.45
Consensus pattern (35 bp):
TCCATGCCTTCATTTTTATATTCCATGCCCATCAT
Found at i:457167 original size:6 final size:6
Alignment explanation
Indices: 457133--457160 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
457123 TTATTATTTT
457133 TTTTAA TTTTAA TTTTAA TTTTAA TTTT
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTT
457161 TGATTTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (6 bp):
TTTTAA
Found at i:457680 original size:42 final size:40
Alignment explanation
Indices: 457591--457690 Score: 105
Period size: 42 Copynumber: 2.4 Consensus size: 40
457581 GTCCCACTTT
* *
457591 TTGAGGACAAAGAAAAAGAGAATGAAATAGGTCATGTTCC
1 TTGAGGACAAAGGAAAAGAGAAAGAAATAGGTCATGTTCC
* *
457631 TTTAGGACAAAGGAAAAGAAGAAAAGGAA-AGTGTCATGCTT-C
1 TTGAGGACAAAGGAAAAG-AG-AAAGAAATAG-GTCATG-TTCC
457673 TTGAGGACAAAGTGAAAA
1 TTGAGGACAAAG-GAAAA
457691 AGAGTACGTC
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
40 16 0.32
41 4 0.08
42 23 0.46
43 7 0.14
ACGTcount: A:0.46, C:0.09, G:0.26, T:0.19
Consensus pattern (40 bp):
TTGAGGACAAAGGAAAAGAGAAAGAAATAGGTCATGTTCC
Found at i:457831 original size:43 final size:41
Alignment explanation
Indices: 457742--457843 Score: 118
Period size: 42 Copynumber: 2.4 Consensus size: 41
457732 ACGAATTACT
* * *
457742 TCCTGCTCTCTAAGGACAAAAGAAAAAGGAAAATAAAGTGCG
1 TCCTGCTCTTTGAGGACAAAAGAAAAAGGAAAAAAAAGT-CG
457784 TCCTGCTCTTTGAGGACAAAAGAGAAAA-GAAGGGAAAAAAGT-G
1 TCCTGCTCTTTGAGGACAAAAGA-AAAAGGAA---AAAAAAGTCG
457827 TCCTGCTCTTTGAGGAC
1 TCCTGCTCTTTGAGGAC
457844 TGAAAAGTGC
Statistics
Matches: 53, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
42 24 0.45
43 22 0.42
45 7 0.13
ACGTcount: A:0.39, C:0.17, G:0.25, T:0.20
Consensus pattern (41 bp):
TCCTGCTCTTTGAGGACAAAAGAAAAAGGAAAAAAAAGTCG
Found at i:457919 original size:61 final size:60
Alignment explanation
Indices: 457819--458030 Score: 241
Period size: 61 Copynumber: 3.5 Consensus size: 60
457809 AAAGAAGGGA
* * *
457819 AAAAAGTGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAATTCGTGTGGTCTTTGAAAAG
1 AAAAAGCGTCCTGCTCTTTAAGGACTGAAAAGTGCCACCAATT-GTGTGGGCTTTGAAAAG
* * * * * *
457880 AAAAGGTGTCCTGCTCTTTGAGGACTG-GAAGATGCCACCAACTAGTGTGGGATTTGCAAAA-
1 AAAAAGCGTCCTGCTCTTTAAGGACTGAAAAG-TGCCACCAA-TTGTGTGGGCTTTG-AAAAG
* * *
457941 AGAAAGCATCCTACTCTTTAAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGG
1 AAAAAGCGTCCTGCTCTTTAAGGACTGAAAAGTGCCACCAA-TTGTGTGGGCTTTGAAAA-G
458002 AAAAAGCGTCCTGCTCTTTAAGGACTGAA
1 AAAAAGCGTCCTGCTCTTTAAGGACTGAA
458031 GGTGAAAGGA
Statistics
Matches: 128, Mismatches: 17, Indels: 12
0.82 0.11 0.08
Matches are distributed among these distances:
59 4 0.03
60 3 0.02
61 113 0.88
62 8 0.06
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (60 bp):
AAAAAGCGTCCTGCTCTTTAAGGACTGAAAAGTGCCACCAATTGTGTGGGCTTTGAAAAG
Found at i:458137 original size:55 final size:55
Alignment explanation
Indices: 458045--458468 Score: 498
Period size: 55 Copynumber: 7.5 Consensus size: 55
458035 AAAGGAGAGA
* *
458045 GCGTCCTACTCTTTGAGGACT-AAGATGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAA-AGGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * * *
458100 GAGTCTTGCTCTTTGATGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * * *
458155 GCGTTCTGCTCTTTGAAGACT-AAATGGTGCCACCAACTTGTGTGAGCTATGAAAGGCGAAG
1 GCGTCCTGCTCTTTGAGGACTGAAA-GGTGCCACCAACTTGTGTGGGCT-T-TAA----AAG
*
458216 GCGTCCTGCTCTTTGAGGATTATGAAA--TGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGA--CTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
* *
458271 GAGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * * *
458326 GCGTCCTGCTCTTTGAAGACTGAAAGGTGCCACCAATTTGAGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
*
458381 GCAAAGAGGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 GC------GTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
458443 GCGTCCTGCTCTTTGAGGACT-AAAGG
1 GCGTCCTGCTCTTTGAGGACTGAAAGG
458469 GTGAAAGGAA
Statistics
Matches: 318, Mismatches: 31, Indels: 41
0.82 0.08 0.11
Matches are distributed among these distances:
53 5 0.02
54 7 0.02
55 186 0.58
56 22 0.07
57 1 0.00
59 2 0.01
60 1 0.00
61 58 0.18
62 32 0.10
63 1 0.00
64 3 0.01
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (55 bp):
GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
Found at i:458318 original size:171 final size:172
Alignment explanation
Indices: 458045--458711 Score: 770
Period size: 171 Copynumber: 4.0 Consensus size: 172
458035 AAAGGAGAGA
* * * *
458045 GCGTCCTACTCTTTGAGGACTAAG-ATGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCTTGC
1 GCGTCCTGCTCTTTGAGGACTATGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGC
* *
458109 TCTTTGATGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTTCTGCTCTTTGAAGA
66 TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAAGA
* *
458174 CTA-AATGGTGCCACCAACTTGTGTGAGCTATGAAAGGCGAAG
131 CTAGAA-GGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAG
*
458216 GCGTCCTGCTCTTTGAGGATTATGAAA-TGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGC
1 GCGTCCTGCTCTTTGAGGACTATGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGC
458280 TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAAGA
66 TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAAGA
* * *
458345 CT-GAAAGGTGCCACCAATTTGAGTGGGCTTTGAAAGGCAAAG
131 CTAG-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAG
*
458387 AG-GTCCTGCTCTTTGAGGACTA-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCT
1 -GCGTCCTGCTCTTTGAGGACTATG-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCT
*
458450 GCTCTTTGAGGACT-AAAGGGTG--A--AA---------G----GAAAGAGCGTCCTACTCTTTG
64 GCTCTTTGAGGACTGAAA-GGTGCCACCAACTTGTGTGGGCTTTGAAAG-GCGTCCTGCTCTTTG
* *
458497 AGGACTAGGAA-GTGTCACCAACTTGTGTGGGCTTT--AA----AAG
127 AAGACTA-GAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAG
* * *
458537 GAGTCCTGCTCTTTGAGGAC--TGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTG
1 GCGTCCTGCTCTTTGAGGACTATGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTG
*
458600 CTCTTTGAAGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAGGCATCCTGCTCT
65 CTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGC----G--TCCTGCTCT
* *
458665 TTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
124 TTGAAGACTAG-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
458712 TCCTGCTCTT
Statistics
Matches: 428, Mismatches: 23, Indels: 83
0.80 0.04 0.16
Matches are distributed among these distances:
148 3 0.01
149 54 0.13
150 24 0.06
151 1 0.00
153 2 0.00
154 2 0.00
155 5 0.01
156 40 0.09
157 2 0.00
158 1 0.00
159 1 0.00
162 1 0.00
165 2 0.00
166 5 0.01
168 2 0.00
169 1 0.00
170 3 0.01
171 198 0.46
172 79 0.18
174 2 0.00
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (172 bp):
GCGTCCTGCTCTTTGAGGACTATGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGC
TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAAGA
CTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAG
Found at i:458393 original size:116 final size:113
Alignment explanation
Indices: 458033--458468 Score: 480
Period size: 116 Copynumber: 3.8 Consensus size: 113
458023 GGACTGAAGG
* * *
458033 TGAAAGGAGAGAGCGTCCTACTCTTTGAGGACTAAGATGTGCCACCAACTTGTGTGGGCTTTAAA
1 TGAAAGGA-A-AGAGTCCTGCTCTTTGAGGACTAA-AGGTGCCACCAACTTGTGTGGGCTTTAAA
* * *
458098 AGGAGTCTTGCTCTTTGATGACTGAAAGGTGCCACCAACTTGTGTGGGCTT
63 AGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTT
* * * * *
458149 TGAAA-G---GCGTTCTGCTCTTTGAAGACTAAATGGTGCCACCAACTTGTGTGAGCTATGAAAG
1 TGAAAGGAAAGAGTCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCT-T-TAA-
*
458210 GCGAAGGCGTCCTGCTCTTTGAGGATTATGAAA--TGCCACCAACTTGTGTGGGCTT
62 ---AAGGCGTCCTGCTCTTTGAGGA--CTGAAAGGTGCCACCAACTTGTGTGGGCTT
* *
458265 T--AA--AAGGAGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
1 TGAAAGGAAAGAGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * *
458326 GCGTCCTGCTCTTTGAAGACTGAAAGGTGCCACCAATTTGAGTGGGCTT
65 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTT
*
458375 TGAAAGGCAAAGAGGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAA
1 TGAAAGG-AAAGA-GTCCTGCTCTTTGAGGACT--AAAGGTGCCACCAACTTGTGTGGGCTTTAA
458440 AAGGCGTCCTGCTCTTTGAGGACT-AAAGG
62 AAGGCGTCCTGCTCTTTGAGGACTGAAAGG
458469 GTGAAAGGAA
Statistics
Matches: 274, Mismatches: 24, Indels: 44
0.80 0.07 0.13
Matches are distributed among these distances:
108 5 0.02
109 1 0.00
110 83 0.30
111 1 0.00
112 4 0.01
114 3 0.01
115 6 0.02
116 111 0.41
117 55 0.20
118 5 0.02
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.27
Consensus pattern (113 bp):
TGAAAGGAAAGAGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
CGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTT
Found at i:458518 original size:266 final size:266
Alignment explanation
Indices: 458216--458864 Score: 1075
Period size: 266 Copynumber: 2.4 Consensus size: 266
458206 AAAGGCGAAG
* * * *
458216 GCGTCCTGCTCTTTGAGGATTATGAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCT
1 GCGTCCTACTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCT
458281 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAAGAC
66 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAAGAC
* *
458346 TGAAAGGTGCCACCAATTTGAGTGGGCTTTGAAAGGCAAAGAG-GTCCTGCTCTTTGAGGACTAG
131 TGAAAGGTGCCACCAACTTGAGTGGGCTTTGAAAGGCAAAG-GCATCCTGCTCTTTGAGGACTAG
458410 AAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGAAA
195 AAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGAAA
458475 GGAAAGA
260 GGAAAGA
*
458482 GCGTCCTACTCTTTGAGGACTAGGAAGTGTCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCT
1 GCGTCCTACTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCT
458547 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAAGAC
66 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAAGAC
* *
458612 TGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAGGCATCCTGCTCTTTGAGGACTAGA
131 TGAAAGGTGCCACCAACTTGAGTGGGCTTTGAAAGGCAAAGGCATCCTGCTCTTTGAGGACTAGA
* *
458677 AAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGTACTAAAGGGTGAAAG
196 AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGAAAG
**
458742 GAGGGA
261 GAAAGA
* *
458748 GCATCCTACTCTTTGAGGACTAGGAAGCGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGT
1 GCGTCCTACTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAA-G-G-A---GT
**
458813 CCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGG
60 CCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
458865 AAAAGGCGTC
Statistics
Matches: 358, Mismatches: 18, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
265 1 0.00
266 302 0.84
267 1 0.00
268 1 0.00
269 1 0.00
272 52 0.15
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (266 bp):
GCGTCCTACTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCT
CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAAGAC
TGAAAGGTGCCACCAACTTGAGTGGGCTTTGAAAGGCAAAGGCATCCTGCTCTTTGAGGACTAGA
AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGAAAG
GAAAGA
Found at i:458537 original size:94 final size:96
Alignment explanation
Indices: 458375--458563 Score: 312
Period size: 94 Copynumber: 2.0 Consensus size: 96
458365 GAGTGGGCTT
*
458375 TGAAAGGCAAAGAGGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAA
1 TGAAAGGCAAAGAGGTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAA
*
458440 AAGGCGTCCTGCTCTTTGAGGACT-AAAGGG
66 AAGGAGTCCTGCTCTTTGAGGACTGAAAGGG
* *
458470 TGAAAGG-AAAGAGCGTCCTACTCTTTGAGGACTAG-GAAGTGTCACCAACTTGTGTGGGCTTTA
1 TGAAAGGCAAAGAG-GTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTA
458533 AAAGGAGTCCTGCTCTTTGAGGACTGAAAGG
65 AAAGGAGTCCTGCTCTTTGAGGACTGAAAGG
458564 TGCCACCAAC
Statistics
Matches: 88, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
94 56 0.64
95 32 0.36
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.25
Consensus pattern (96 bp):
TGAAAGGCAAAGAGGTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAA
AAGGAGTCCTGCTCTTTGAGGACTGAAAGGG
Found at i:458697 original size:62 final size:57
Alignment explanation
Indices: 458484--458725 Score: 318
Period size: 55 Copynumber: 4.3 Consensus size: 57
458474 AGGAAAGAGC
* * * *
458484 GTCCTACTCTTTGAGGACT-AGGAAGTGTCACCAACTTGTGTGGGCTTT-AAAAG-GA
1 GTCCTGCTCTTTGAGGACTGA-AAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGA
*
458539 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGC--
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGA
* *
458594 GTCCTGCTCTTTGAAGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAA
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG-A
458652 GGCATCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGC--
1 -G--TCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGA
458711 GTCCTGCTCTTTGAG
1 GTCCTGCTCTTTGAG
458726 TACTAAAGGG
Statistics
Matches: 169, Mismatches: 8, Indels: 19
0.86 0.04 0.10
Matches are distributed among these distances:
55 96 0.57
56 19 0.11
58 1 0.01
59 1 0.01
61 17 0.10
62 35 0.21
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (57 bp):
GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGA
Found at i:458712 original size:117 final size:110
Alignment explanation
Indices: 458476--458724 Score: 356
Period size: 117 Copynumber: 2.2 Consensus size: 110
458466 AGGGTGAAAG
* * * *
458476 GAAAGAGCGTCCTACTCTTTGAGGACTAGGAAGTGTCACCAACTTGTGTGGGCTTTAAAAGGAGT
1 GAAAG-GCGTCCTGCTCTTTGAAGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGT
*
458541 CCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
65 CCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT
*
458587 GAAAGGCGTCCTGCTCTTTGAAGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGA
1 GAAAGGCGTCCTGCTCTTTGAAGACTAGAAA-GTGCCACCAACTTGTGTGGGCTTT-AAAAG-G-
458651 AGGCATCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT
62 A-G--TCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTT
458704 GAAAGGCGTCCTGCTCTTTGA
1 GAAAGGCGTCCTGCTCTTTGA
458725 GTACTAAAGG
Statistics
Matches: 124, Mismatches: 6, Indels: 10
0.89 0.04 0.07
Matches are distributed among these distances:
109 3 0.02
110 42 0.34
111 9 0.07
112 1 0.01
113 1 0.01
114 1 0.01
116 18 0.15
117 49 0.40
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (110 bp):
GAAAGGCGTCCTGCTCTTTGAAGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTC
CTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT
Found at i:458841 original size:61 final size:62
Alignment explanation
Indices: 458756--458896 Score: 214
Period size: 61 Copynumber: 2.3 Consensus size: 62
458746 GAGCATCCTA
* ** * *
458756 CTCTTTGAGGACTAG-GAAGCGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTG
1 CTCTTTGAGGACTAGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCATG
*
458817 CTCTTTGAGGACT-GAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCATG
1 CTCTTTGAGGACTAGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCATG
458878 CTCTTTGAGGACTAGAAAA
1 CTCTTTGAGGACTAGAAAA
458897 GTGGAAGAAG
Statistics
Matches: 72, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
60 1 0.01
61 66 0.92
62 5 0.07
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (62 bp):
CTCTTTGAGGACTAGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCATG
Found at i:472333 original size:28 final size:29
Alignment explanation
Indices: 472293--472364 Score: 121
Period size: 28 Copynumber: 2.6 Consensus size: 29
472283 TAAGGGCCGA
472293 GGTTGGAGTATCCCCGT-GAAAATAACGG
1 GGTTGGAGTATCCCCGTCGAAAATAACGG
*
472321 GGTTGGAGTATCCCC-TCGGAAATAACGG
1 GGTTGGAGTATCCCCGTCGAAAATAACGG
472349 GGTTGGAGTATCCCCG
1 GGTTGGAGTATCCCCG
472365 ATTATGAAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 1 0.02
28 40 0.98
ACGTcount: A:0.24, C:0.21, G:0.33, T:0.22
Consensus pattern (29 bp):
GGTTGGAGTATCCCCGTCGAAAATAACGG
Found at i:472408 original size:79 final size:79
Alignment explanation
Indices: 472318--473088 Score: 1190
Period size: 79 Copynumber: 9.8 Consensus size: 79
472308 GTGAAAATAA
*
472318 CGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGT
472383 TTTAGAAATAAAAC
66 TTTAGAAATAAAAC
* *
472397 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGATTGGAGTATCCTCGATTATGAAAAATTGATGT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGT
472462 TTTAGAAATAAAAC
66 TTTAGAAATAAAAC
* *
472476 CGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGAAGTATCCCCGATTATGAAAAATTGATGT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGT
472541 TTTAGAAATAAAAC
66 TTTAGAAATAAAAC
* * * * *
472555 TC-GGGTTGGAGTATTCTCTCGGAAATAACAGGGTTGGAGTATCCTCGATTATGAAAAATTGATG
1 -CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATG
**
472619 TTTTAGAGGTAAAAC
65 TTTTAGAAATAAAAC
* * * *
472634 CGGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCCGATTATGAGAAATTAATAT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGT
472699 TTTAGAAATAAAA-
66 TTTAGAAATAAAAC
* * ** *
472712 CGAGGGTTAGAGTATCCCCTCGGAAATAATAGGGTTCGAGTATCCCCGATTATG-AAAATTGATG
1 CG-GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATG
*
472776 TTTTAGAGATAAAAC
65 TTTTAGAAATAAAAC
* * * * *
472791 CGGGGTTAGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATTAAT-A
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGT
472855 TTTAGAAATAAAAC
66 TTTAGAAATAAAAC
* *
472869 CGGGGTTAGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCTGATTATGAAAAATTGATGT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGT
*
472934 TTTAGAGATAAAAC
66 TTTAGAAATAAAAC
* *
472948 CGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAATTTGATGT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGT
473013 TTTAGAAATAAAAC
66 TTTAGAAATAAAAC
* *
473027 CGAGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAATTTGA
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGA
473089 GAAAATTAAA
Statistics
Matches: 631, Mismatches: 55, Indels: 12
0.90 0.08 0.02
Matches are distributed among these distances:
78 141 0.22
79 489 0.77
80 1 0.00
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGT
TTTAGAAATAAAAC
Found at i:472434 original size:107 final size:109
Alignment explanation
Indices: 472236--472440 Score: 308
Period size: 107 Copynumber: 1.9 Consensus size: 109
472226 AAAATAAAAT
**
472236 CGGGGTTAGAGTATCCCCGATTATAAAAAAAATTGATGCTTTAGAAATAAGGGCCGAGGTTGGAG
1 CGGGGTTAGAGTATCCCCGATTAT-AAAAAAATTGATGCTTTAGAAATAAGAACCGAGGTTGGAG
*
472301 TATCCCCGTGAAAATAACGGGGTTGGAGTATCCCCTCGGAAATAA
65 TATCCCCGTGAAAATAACGGGATTGGAGTATCCCCTCGGAAATAA
* * * *
472346 CGGGGTTGGAGTATCCCCGATTAT-GAAAAATTGATGTTTTAGAAATAA-AACCGGGGTTGGAGT
1 CGGGGTTAGAGTATCCCCGATTATAAAAAAATTGATGCTTTAGAAATAAGAACCGAGGTTGGAGT
472409 ATCCCC-TCGAAAATAACGGGATTGGAGTATCC
66 ATCCCCGT-GAAAATAACGGGATTGGAGTATCC
472441 TCGATTATGA
Statistics
Matches: 87, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
106 1 0.01
107 41 0.47
108 22 0.25
110 23 0.26
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.25
Consensus pattern (109 bp):
CGGGGTTAGAGTATCCCCGATTATAAAAAAATTGATGCTTTAGAAATAAGAACCGAGGTTGGAGT
ATCCCCGTGAAAATAACGGGATTGGAGTATCCCCTCGGAAATAA
Found at i:474535 original size:35 final size:34
Alignment explanation
Indices: 474469--474556 Score: 151
Period size: 35 Copynumber: 2.6 Consensus size: 34
474459 CCTCATTTTC
*
474469 TTCCATGCTTTCATTTTT-TATCCATGCCCATCA
1 TTCCATGCCTTCATTTTTATATCCATGCCCATCA
474502 TTCCATGCCTTCATTTTTATATTCCATGCCCATCA
1 TTCCATGCCTTCATTTTTATA-TCCATGCCCATCA
474537 TTCCATGCCTTCATTTTTAT
1 TTCCATGCCTTCATTTTTAT
474557 TATTATTATT
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
33 17 0.33
34 2 0.04
35 33 0.63
ACGTcount: A:0.18, C:0.30, G:0.06, T:0.47
Consensus pattern (34 bp):
TTCCATGCCTTCATTTTTATATCCATGCCCATCA
Found at i:474577 original size:6 final size:6
Alignment explanation
Indices: 474568--474595 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
474558 ATTATTATTT
474568 TTTTAA TTTTAA TTTTAA TTTTAA TTTT
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTT
474596 TTATTTTTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (6 bp):
TTTTAA
Found at i:478275 original size:48 final size:50
Alignment explanation
Indices: 478170--478263 Score: 120
Period size: 48 Copynumber: 1.9 Consensus size: 50
478160 TATATTCAAA
* * *
478170 ATATCGATACATCTAGAGTTTTTCCAGAATGTATCGATACAATGCAACTT
1 ATATCGATACATCTAGAGGTTTCCCAGAATGTATCGATACAATGCAACAT
* * *
478220 ACATCGATACATCT-G-GGTTTCCCAGATTGTATCGATATAATGCA
1 ATATCGATACATCTAGAGGTTTCCCAGAATGTATCGATACAATGCA
478264 TGATGTATCG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
48 25 0.64
49 1 0.03
50 13 0.33
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (50 bp):
ATATCGATACATCTAGAGGTTTCCCAGAATGTATCGATACAATGCAACAT
Found at i:480186 original size:21 final size:22
Alignment explanation
Indices: 480162--480202 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
480152 TAAATTTGTG
480162 ATATTTGTGATAT-TTTTGCTA
1 ATATTTGTGATATGTTTTGCTA
* *
480183 ATATTTTTGTTATGTTTTGC
1 ATATTTGTGATATGTTTTGC
480203 ATAAGTTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.20, C:0.05, G:0.15, T:0.61
Consensus pattern (22 bp):
ATATTTGTGATATGTTTTGCTA
Found at i:483284 original size:2 final size:2
Alignment explanation
Indices: 483277--483316 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
483267 AGCCTTTAGC
483277 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
483317 TAAATAAAAT
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:483818 original size:19 final size:19
Alignment explanation
Indices: 483766--483839 Score: 53
Period size: 19 Copynumber: 3.7 Consensus size: 19
483756 TAAGCACGAT
*
483766 TATATAAATATTATATAAAA
1 TATATAAATATGAT-TAAAA
*
483786 AATTATTAAAATATGA-TAAGAA
1 TA-TA-T-AAATATGATTAA-AA
483808 TATATAAATAT-ATTAAAA
1 TATATAAATATGATTAAAA
*
483826 TTTATATAATATGA
1 TATATA-AATATGA
483840 ATTATTAATG
Statistics
Matches: 43, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
18 8 0.19
19 14 0.33
20 3 0.07
21 7 0.16
22 4 0.09
23 7 0.16
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (19 bp):
TATATAAATATGATTAAAA
Found at i:485715 original size:22 final size:22
Alignment explanation
Indices: 485690--485731 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
485680 GTTTTGGATT
*
485690 ATTTCAAATTCGGGTCAATTAG
1 ATTTCAAACTCGGGTCAATTAG
*
485712 ATTTCAAACTCGGGTTAATT
1 ATTTCAAACTCGGGTCAATT
485732 GAGTTTGACC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (22 bp):
ATTTCAAACTCGGGTCAATTAG
Found at i:487033 original size:21 final size:20
Alignment explanation
Indices: 487009--487053 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
486999 CCAATTTAAT
487009 TAAAATATTAAAAAATAAAAA
1 TAAAATATTAAAAAA-AAAAA
* *
487030 TAAAATATTAATAAAAAATA
1 TAAAATATTAAAAAAAAAAA
487050 TAAA
1 TAAA
487054 TTAAAAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (20 bp):
TAAAATATTAAAAAAAAAAA
Found at i:487047 original size:13 final size:13
Alignment explanation
Indices: 487031--487064 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
487021 AAATAAAAAT
487031 AAAATATTAATAA
1 AAAATATTAATAA
* *
487044 AAAATATAAATTA
1 AAAATATTAATAA
487057 AAAATATT
1 AAAATATT
487065 TATATAATGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AAAATATTAATAA
Found at i:487049 original size:24 final size:26
Alignment explanation
Indices: 487017--487064 Score: 73
Period size: 24 Copynumber: 1.9 Consensus size: 26
487007 ATTAAAATAT
487017 TAAAAAATA-AAAAT-AAAATATTAA
1 TAAAAAATATAAAATAAAAATATTAA
*
487041 TAAAAAATATAAATTAAAAATATT
1 TAAAAAATATAAAATAAAAATATT
487065 TATATAATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 9 0.43
25 4 0.19
26 8 0.38
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (26 bp):
TAAAAAATATAAAATAAAAATATTAA
Found at i:498595 original size:36 final size:35
Alignment explanation
Indices: 498553--498620 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
498543 TTAAAATAAA
*
498553 TTAATAATATATGTTATAAATATTAT-TTTTATTAAG
1 TTAATAATAT-TGTTA-AAAAATTATATTTTATTAAG
*
498589 TTAATAATATTTTTAAAAAATTATATTTTATT
1 TTAATAATATTGTTAAAAAATTATATTTTATT
498621 TAAATTCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 8 0.28
35 11 0.38
36 10 0.34
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (35 bp):
TTAATAATATTGTTAAAAAATTATATTTTATTAAG
Found at i:498659 original size:23 final size:25
Alignment explanation
Indices: 498629--498675 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 25
498619 TTTAAATTCA
*
498629 AATAATTTTTAAT-T-AATTATTTG
1 AATAATTTTAAATATAAATTATTTG
498652 AATAATTTTAAATATAAATTATTT
1 AATAATTTTAAATATAAATTATTT
498676 TTGAATTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 12 0.57
24 1 0.05
25 8 0.38
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (25 bp):
AATAATTTTAAATATAAATTATTTG
Done.