Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000785.1 Hibiscus syriacus cultivar Beakdansim tig00001523_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 195188
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
File 1 of 2
Found at i:1122 original size:16 final size:17
Alignment explanation
Indices: 1098--1131 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
1088 GTGGTAATGT
1098 TGTTAATAA-TTTTAGA
1 TGTTAATAATTTTTAGA
*
1114 TGTTTATAATTTTTAGA
1 TGTTAATAATTTTTAGA
1131 T
1 T
1132 TTCTTATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (17 bp):
TGTTAATAATTTTTAGA
Found at i:2690 original size:3 final size:3
Alignment explanation
Indices: 2667--2732 Score: 77
Period size: 3 Copynumber: 22.7 Consensus size: 3
2657 GGCCTACAAA
*
2667 AAT AAT AA- AAT AAA AAT -AT AAT AAT AAT AAT AAT AAT AAT AAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
2714 ATAT AAT -AT AAT -AT AAT AA
1 A-AT AAT AAT AAT AAT AAT AA
2733 AATGTTTTTG
Statistics
Matches: 55, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
2 8 0.15
3 41 0.75
4 6 0.11
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:3219 original size:84 final size:83
Alignment explanation
Indices: 3081--3845 Score: 726
Period size: 84 Copynumber: 9.2 Consensus size: 83
3071 AATGGAATCA
* * * * * * *
3081 AACTCGAAGGTCTTTG--G-CATATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGGTGCC
1 AACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGACTTAAGTTATGCTGTAAATGAT-GTGCC
* * *
3143 TTTGAGTTGAGTGGAGTCG
65 TTGGAGCTGAGTGTAGTCG
* * *
3162 AACTCGAAGGTCTTTGTTGACAAATAACCCTTCTAGCCTTGAGTTATG-TCGTAAATGATGTGCC
1 AACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGACTTAAGTTATGCT-GTAAATGATGTG-C
* * *
3226 CTCGAAGCTGAGTGTAATCG
64 CTTGGAGCTGAGTGTAGTCG
* * *
3246 AACTCGAGGGTCTTTG--G-CAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATGTGCCT
1 AACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGACTTAAGTTATGCTGTAAATGATGTGCCT
**
3308 TGGAGCTGAGCATAGTCG
66 TGGAGCTGAGTGTAGTCG
* * *
3326 AACTCGAAGGTCTTTGGTTGGA-AGATAACCCTTCTCGACTTAAGTTATGTTGTAAATGATATGC
1 AACTCGAAGGTCTTT-GTT-GACAGATAACCCTTCTAGACTTAAGTTATGCTGTAAATGATGTGC
*
3390 CTTGGAGCTGAGCGTAGTCG
64 CTTGGAGCTGAGTGTAGTCG
* * * * * *
3410 AACTCGAAGGTCTTTTGGTCACAGATAACCCTTATAGCCTTGAGTTATGCTGTAAATGATGTTCC
1 AACTCGAAGGTC-TTTGTTGACAGATAACCCTTCTAGACTTAAGTTATGCTGTAAATGATG-TGC
* * *
3475 CTCGAAGCTGAGTGTAATCG
64 CTTGGAGCTGAGTGTAGTCG
* ** * * * **
3495 AACTCGAGGGTCTTTG--G-CAGATAGTCATTCTCGACTTAAGCTATGCTACAAATGATGTGCCT
1 AACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGACTTAAGTTATGCTGTAAATGATGTGCCT
3557 TGGAGCTGA-TCGTAGTCG
66 TGGAGCTGAGT-GTAGTCG
* * * * *
3575 AACTCGAAGGTCTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCT
1 AACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGACTTAAGTTATGCTGTAAATGATGTGCCT
*
3640 TGGAGCTGAGCGTAGTCG
66 TGGAGCTGAGTGTAGTCG
* * * * * *
3658 AATTCGAAGGTCTTTTGGTCACATATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCC
1 AACTCGAAGGTC-TTTGTTGACAGATAACCCTTCTAGACTTAAGTTATGCTGTAAATGATGTGCC
** * *
3723 TTCAAAGATGAGTGTAATCG
65 TT-GGAGCTGAGTGTAGTCG
* * * * * * *
3743 AACTTGAGGGTCTTCGGTTGGCAGATAACCCTTATTGACTTAAGTTATGCTGCAAATGATGTGCC
1 AACTCGAAGGTCTT-TGTTGACAGATAACCCTTCTAGACTTAAGTTATGCTGTAAATGATGTGCC
* * *
3808 TTGGAGCCGAGCGTAGTTG
65 TTGGAGCTGAGTGTAGTCG
*
3827 AACTCGAAGGCCTTTGTTG
1 AACTCGAAGGTCTTTGTTG
3846 GGCACGATTC
Statistics
Matches: 555, Mismatches: 107, Indels: 42
0.79 0.15 0.06
Matches are distributed among these distances:
79 1 0.00
80 61 0.11
81 82 0.15
82 3 0.01
83 76 0.14
84 237 0.43
85 95 0.17
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (83 bp):
AACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGACTTAAGTTATGCTGTAAATGATGTGCCT
TGGAGCTGAGTGTAGTCG
Found at i:3647 original size:248 final size:248
Alignment explanation
Indices: 3081--3846 Score: 1083
Period size: 248 Copynumber: 3.1 Consensus size: 248
3071 AATGGAATCA
* * * * * * *
3081 AACTCGAAGGTC-T--TTGGCATATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGGTGCC
1 AACTCGAAGGTCTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGAT-ATGCC
* * * * * *
3143 TTTGAGTTGAGTGGAGTCGAACTCGAAGGTC-TTTGTTGACAAATAACCCTTCTAGCCTTGAGTT
65 TTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAAATAACCCTTCTAGCCTTGAGTT
3207 ATG-TCGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAAC
130 ATGCT-GTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAAC
*
3271 CCTTCTAGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCATAGTCG
194 CCTTCTAGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCG
* * *
3326 AACTCGAAGGTCTTTGGTTGGAAGATAACCCTTCTCGACTTAAGTTATGTTGTAAATGATATGCC
1 AACTCGAAGGTC-TTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCC
* *
3391 TTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTATAGCCTTGAGTT
65 TTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAAATAACCCTTCTAGCCTTGAGTT
* **
3456 ATGCTGTAAATGATGTTCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGTC
130 ATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAACC
* * * *
3521 ATTCTCGACTTAAGCTATGCTACAAATGATGTGCCTTGGAGCTGATCGTAGTCG
195 CTTCTAGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCG
3575 AACTCGAAGGTCTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCT
1 AACTCGAAGGTCTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCT
* *
3640 TGGAGCTGAGCGTAGTCGAATTCGAAGGTCTTTTGGTCACATATAACCCTTCTAGCCTTGAGTTA
66 TGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAAATAACCCTTCTAGCCTTGAGTTA
* * * *
3705 TGCTGTAAATGATGTGCCTTCAAAGATGAGTGTAATCGAACTTGAGGGTCTTCGGTTGGCAGATA
131 TGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTC-T---TTGGCAGATA
* * * * *
3770 ACCCTTATTGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCCGAGCGTAGTTG
192 ACCCTTCTAGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCG
* *
3827 AACTCGAAGGCCTTTGTTGG
1 AACTCGAAGGTCTTGGTTGG
3847 GCACGATTCC
Statistics
Matches: 462, Mismatches: 49, Indels: 13
0.88 0.09 0.02
Matches are distributed among these distances:
245 12 0.03
247 1 0.00
248 188 0.41
249 185 0.40
250 1 0.00
252 75 0.16
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (248 bp):
AACTCGAAGGTCTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCT
TGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAAATAACCCTTCTAGCCTTGAGTTA
TGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAACCC
TTCTAGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCG
Found at i:3832 original size:332 final size:330
Alignment explanation
Indices: 3214--3842 Score: 793
Period size: 332 Copynumber: 1.9 Consensus size: 330
3204 GTTATGTCGT
*
3214 AAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAACCCTTCTAG
1 AAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTAG
*
3279 ACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCATAGTCGAACTCGAAGGTCTTTGGT
66 ACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAGCATAGTCGAACTCGAAGGTCTTTGGT
* * * ** * *
3344 TGGAAGATAACCCTTCTCGACTTAAGTTATGTTGTAAATGATATGCCTTGGAGCTGAGCGTAGTC
131 TGCAAGATAACCCTTCTAGACTTAAGTTATGCTGTAAATGATATGCCTTAAAGATGAGCGTAATC
* * * *
3409 GAACTCGAAGGTCTTTTGGTCACAGATAACCCTTATAGCCTTGAGTTATGCTGTAAATGATGTTC
196 GAACTCGAAGGTCTTTCGGTCACAGATAACCCTTATAGACTTAAGTTATGCTGCAAATGATGTTC
* * * *
3474 CCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGTCATTCTCGACTTAAGCTAT
261 CCTCGAAGCCGAGCGTAATCGAACTCGAAGGCCTTTGGCAGATAGTCATTCTCGACTTAAGCTAT
3539 GCTAC
326 GCTAC
* * *
3544 AAATGATGTG-CCTTGGAGCTGA-TCGTAGTCGAACTCGAAGGTCTTGGTTGGCAGATAACCCTT
1 AAATGATGTGCCCTCGAAGCTGAGT-GTAATCGAACTCGAAGGTC-T--TTGGCAGATAACCCTT
* * * *
3607 CTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAATTCGAAGGTCTT
62 CTAGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAGCATAGTCGAACTCGAAGGTC-T
* * * *
3672 TTGG-T-CACATATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCTTCAAAGATGAG
126 TTGGTTGCA-AGATAACCCTTCTAGACTTAAGTTATGCTGTAAATGATATGCCTT-AAAGATGAG
* * * ** *
3735 TGTAATCGAACTTGAGGGTC-TTCGGTTGGCAGATAACCCTTATTGACTTAAGTTATGCTGCAAA
189 CGTAATCGAACTCGAAGGTCTTTCGG-TCACAGATAACCCTTATAGACTTAAGTTATGCTGCAAA
* * * * *
3799 TGATG-TGCCTTGGAGCCGAGCGTAGTTGAACTCGAAGGCCTTTG
253 TGATGTTCCCTCGAAGCCGAGCGTAATCGAACTCGAAGGCCTTTG
3843 TTGGGCACGA
Statistics
Matches: 252, Mismatches: 39, Indels: 14
0.83 0.13 0.05
Matches are distributed among these distances:
328 1 0.00
329 27 0.11
330 11 0.04
331 1 0.00
332 148 0.59
333 64 0.25
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.30
Consensus pattern (330 bp):
AAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTAG
ACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAGCATAGTCGAACTCGAAGGTCTTTGGT
TGCAAGATAACCCTTCTAGACTTAAGTTATGCTGTAAATGATATGCCTTAAAGATGAGCGTAATC
GAACTCGAAGGTCTTTCGGTCACAGATAACCCTTATAGACTTAAGTTATGCTGCAAATGATGTTC
CCTCGAAGCCGAGCGTAATCGAACTCGAAGGCCTTTGGCAGATAGTCATTCTCGACTTAAGCTAT
GCTAC
Found at i:4334 original size:217 final size:216
Alignment explanation
Indices: 3966--4591 Score: 833
Period size: 217 Copynumber: 2.9 Consensus size: 216
3956 TGTTTCAAGG
* * *
3966 CCAATATCCTTCACCGTGAAGTTAAAATTGACTCT-AA--AA-TCATAAA---GTTTGTTGACAG
1 CCAATATCCTTCGCTGTGAAGTTAAAATTGACTCTGAATGAACT-AAAAAGTTGTTTGTTGACAG
* * * * * *
4024 CCAG--ACCCCTTTGCTGTGAAGTTGAGCTTGTGTTGTCTCGATTCCAATATCCTTCACTGTGAA
65 TCAGTCGCCCCTTCGATGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAA
* *
4087 GTTGAAATTGACTCTGAATGAAACTGAAAAGTTATTGTTGACAGTCAGTCGCCCCTTCTCTTTGA
130 GTTGAAATTGACTCTGAATGAAACTGAAAAGTT-TTGTTGACAGTCAG-CGCCCCTTCACTGTGA
*
4152 AGTTGAACTTGTGTTGTCTCTAGT
193 AGTTGAACTTGTGTTGTCTCGAGT
4176 CCAATATCCTTCGCTGTGAAGTTAAAATTGACTCTGAATGAACTAAAAAGTTGTTTGTTGACAGT
1 CCAATATCCTTCGCTGTGAAGTTAAAATTGACTCTGAATGAACTAAAAAGTTGTTTGTTGACAGT
* * * * *
4241 CAGTCGCCCCTTCG-TGTAAAGTTAAGCTTGTGTTGTCTCGAGTCCAATATCATTCGTTGTGAAA
66 CAGTCGCCCCTTCGATGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAG
* *
4305 TTGAAATTAACTCTGAATGAAACTGAAAAG-TTTGTTAACAGTCAGCCGCCCCTTCACTGTGAAG
131 TTGAAATTGACTCTGAATGAAACTGAAAAGTTTTGTTGACAGTCAG-CGCCCCTTCACTGTGAAG
4369 TTGAACTTGTGTTGTCTCGAGT
195 TTGAACTTGTGTTGTCTCGAGT
* * * * *
4391 GCAATATCTTTCGTTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGACAG
1 CCAATATCCTTCGCTGTGAAGTTAAAATTGACTCTGAATG-AACTAAAAAGTTGTTTGTTGACAG
* *
4456 TTATTCGCCCCTTCGATGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAA
65 TCAGTCGCCCCTTCGATGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAA
* * * * *
4521 GTTGAAATTGACTCTGAATAAAAATGAAAATTTTTTTGTTGACCGTCAGCGCCCCTTCGCTGTGA
130 GTTGAAATTGACTCTGAATGAAACTGAAAA--GTTTTGTTGACAGTCAGCGCCCCTTCACTGTGA
4586 AGTTGA
193 AGTTGA
4592 GCAACCACCA
Statistics
Matches: 364, Mismatches: 38, Indels: 19
0.86 0.09 0.05
Matches are distributed among these distances:
210 33 0.09
211 2 0.01
213 6 0.02
214 1 0.00
215 86 0.24
216 52 0.14
217 143 0.39
218 7 0.02
219 21 0.06
220 13 0.04
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.35
Consensus pattern (216 bp):
CCAATATCCTTCGCTGTGAAGTTAAAATTGACTCTGAATGAACTAAAAAGTTGTTTGTTGACAGT
CAGTCGCCCCTTCGATGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAG
TTGAAATTGACTCTGAATGAAACTGAAAAGTTTTGTTGACAGTCAGCGCCCCTTCACTGTGAAGT
TGAACTTGTGTTGTCTCGAGT
Found at i:4500 original size:110 final size:110
Alignment explanation
Indices: 4012--4593 Score: 804
Period size: 109 Copynumber: 5.4 Consensus size: 110
4002 AAATCATAAA
* * * *
4012 GTTTGTTGACAGCCAG--ACCCCTTTGCTGTGAAGTTGAGCTTGTGTTGTCTCGATTCCAATATC
1 GTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCAATATC
*
4075 CTTCACTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTT
66 CTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTT
* * * * *
4120 -ATTGTTGACAGTCAGTCGCCCCTTCTCTTTGAAGTTGAACTTGTGTTGTCTCTAGTCCAATATC
1 GTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCAATATC
* *
4184 CTTCGCTGTGAAGTTAAAATTGACTCTGAATG-AACTAAAAAGTT
66 CTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTT
* *
4228 GTTTGTTGACAGTCAGTCGCCCCTTCG-TGTAAAGTTAAGCTTGTGTTGTCTCGAGTCCAATATC
1 GTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCAATATC
* * * *
4292 ATTCGTTGTGAAATTGAAATTAACTCTGAATGAAACTGAAAA---
66 CTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTT
* * * * *
4334 GTTTGTTAACAGTCAGCCGCCCCTTCACTGTGAAGTTGAACTTGTGTTGTCTCGAGTGCAATATC
1 GTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCAATATC
* *
4399 TTTCGTTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTT
66 CTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTT
* * *
4444 GTTTGTTGACAGTTATTCGCCCCTTCGATGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCAATATC
1 GTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCAATATC
* * *
4509 CTTCGCTGTGAAGTTGAAATTGACTCTGAATAAAAATGAAAATTT
66 CTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTT
* *
4554 TTTTGTTGACCGTCAG-CGCCCCTTCGCTGTGAAGTTGAGC
1 GTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGC
4594 AACCACCATC
Statistics
Matches: 413, Mismatches: 53, Indels: 15
0.86 0.11 0.03
Matches are distributed among these distances:
106 24 0.06
107 85 0.21
108 70 0.17
109 125 0.30
110 109 0.26
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (110 bp):
GTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCAATATC
CTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTT
Found at i:8365 original size:21 final size:22
Alignment explanation
Indices: 8324--8387 Score: 57
Period size: 21 Copynumber: 3.1 Consensus size: 22
8314 TAATAATATT
*
8324 AATAA-AAATGAAAAAAA--TA
1 AATAAGAAATAAAAAAAATGTA
* *
8343 AATAA-ATATATAAAAAATGTA
1 AATAAGAAATAAAAAAAATGTA
*
8364 AA-AAGAAATAAAAAAAATGAA
1 AATAAGAAATAAAAAAAATGTA
8385 AAT
1 AAT
8388 TAGGAGAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
19 14 0.40
20 2 0.06
21 19 0.54
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (22 bp):
AATAAGAAATAAAAAAAATGTA
Found at i:8871 original size:24 final size:22
Alignment explanation
Indices: 8833--8890 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 22
8823 GGCCTGGAAA
8833 AATAATAAAAT-AAAAATATAAT
1 AATAATAAAATAAAAAATAT-AT
8855 AATAATATAAATAAAAAATATAT
1 AATAATA-AAATAAAAAATATAT
8878 ATATAATAAAATA
1 A-ATAATAAAATA
8891 TTTTTGTAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
22 7 0.21
23 12 0.36
24 14 0.42
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (22 bp):
AATAATAAAATAAAAAATATAT
Found at i:8874 original size:19 final size:19
Alignment explanation
Indices: 8830--8888 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
8820 TGGGGCCTGG
*
8830 AAAAATAATAAAATAAA-A
1 AAAAATAATAATATAAATA
*
8848 ATATAATAATAATATAAATA
1 A-AAAATAATAATATAAATA
8868 AAAAAT-AT-ATATATAATA
1 AAAAATAATAATATA-AATA
8886 AAA
1 AAA
8889 TATTTTTGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
17 5 0.14
18 10 0.29
19 18 0.51
20 2 0.06
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (19 bp):
AAAAATAATAATATAAATA
Found at i:8887 original size:18 final size:16
Alignment explanation
Indices: 8841--8888 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
8831 AAAATAATAA
* *
8841 AATAAAAATATAATAAT
1 AATATAAATA-AAAAAT
8858 AATATAAATAAAAAAT
1 AATATAAATAAAAAAT
8874 ATATATATAATAAAA
1 A-ATATA-AATAAAA
8889 TATTTTTGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 6 0.22
17 14 0.52
18 7 0.26
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AATATAAATAAAAAAT
Found at i:11299 original size:14 final size:15
Alignment explanation
Indices: 11280--11319 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
11270 CGTTCAATAA
11280 TATGTTC-TTTAATT
1 TATGTTCGTTTAATT
*
11294 TATGTTCGTTT-GTT
1 TATGTTCGTTTAATT
11308 TATGTTCGTTTA
1 TATGTTCGTTTA
11320 TGTGCATTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 20 0.87
15 3 0.13
ACGTcount: A:0.15, C:0.07, G:0.15, T:0.62
Consensus pattern (15 bp):
TATGTTCGTTTAATT
Found at i:11586 original size:24 final size:24
Alignment explanation
Indices: 11559--11619 Score: 122
Period size: 24 Copynumber: 2.5 Consensus size: 24
11549 CTTAATGTTC
11559 GTTTATGTTCGTTTACATCCGTTT
1 GTTTATGTTCGTTTACATCCGTTT
11583 GTTTATGTTCGTTTACATCCGTTT
1 GTTTATGTTCGTTTACATCCGTTT
11607 GTTTATGTTCGTT
1 GTTTATGTTCGTT
11620 CATTTGTGTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.11, C:0.15, G:0.18, T:0.56
Consensus pattern (24 bp):
GTTTATGTTCGTTTACATCCGTTT
Found at i:11724 original size:16 final size:17
Alignment explanation
Indices: 11703--11736 Score: 52
Period size: 16 Copynumber: 2.0 Consensus size: 17
11693 GAAATTTTTT
11703 TGTTCGTT-TTTATTCG
1 TGTTCGTTATTTATTCG
11719 TGTTCGTTCATTTATTCG
1 TGTTCGTT-ATTTATTCG
11737 ATTAAAGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
18 8 0.50
ACGTcount: A:0.09, C:0.15, G:0.18, T:0.59
Consensus pattern (17 bp):
TGTTCGTTATTTATTCG
Found at i:15064 original size:41 final size:42
Alignment explanation
Indices: 15018--15096 Score: 133
Period size: 41 Copynumber: 1.9 Consensus size: 42
15008 AATAATAGGG
15018 TACATATTGATTTTAATTTAG-TATATTTCTTCATATTATGA
1 TACATATTGATTTTAATTTAGTTATATTTCTTCATATTATGA
* *
15059 TACATATTGATTTTAATTTAGTTGTATTTCTTCCTATT
1 TACATATTGATTTTAATTTAGTTATATTTCTTCATATT
15097 CCTTTTGTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
41 21 0.60
42 14 0.40
ACGTcount: A:0.28, C:0.09, G:0.08, T:0.56
Consensus pattern (42 bp):
TACATATTGATTTTAATTTAGTTATATTTCTTCATATTATGA
Found at i:18460 original size:19 final size:20
Alignment explanation
Indices: 18426--18474 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
18416 AACCCCTTTG
*
18426 AAAATACATGATTTTTGATA
1 AAAATACATGATTTTTAATA
*
18446 AAAATACATGA-TTTTAATG
1 AAAATACATGATTTTTAATA
*
18465 AAGATACATG
1 AAAATACATG
18475 CTCTTGGCCG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 15 0.58
20 11 0.42
ACGTcount: A:0.47, C:0.06, G:0.12, T:0.35
Consensus pattern (20 bp):
AAAATACATGATTTTTAATA
Found at i:21773 original size:13 final size:12
Alignment explanation
Indices: 21749--21805 Score: 57
Period size: 13 Copynumber: 4.7 Consensus size: 12
21739 TCTTTTTGAA
21749 TTTTC-TTTTTC
1 TTTTCTTTTTTC
21760 TTTTCTTTTATTC
1 TTTTCTTTT-TTC
21773 TTTTCTGATTTTTC
1 TTTTCT--TTTTTC
21787 --TTCTTTTTGTC
1 TTTTCTTTTT-TC
21798 TTTTCTTT
1 TTTTCTTT
21806 CTTTTTGCAC
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
10 4 0.10
11 7 0.18
12 7 0.18
13 15 0.38
14 3 0.08
15 3 0.08
ACGTcount: A:0.04, C:0.16, G:0.04, T:0.77
Consensus pattern (12 bp):
TTTTCTTTTTTC
Found at i:21786 original size:33 final size:33
Alignment explanation
Indices: 21739--21812 Score: 89
Period size: 33 Copynumber: 2.2 Consensus size: 33
21729 GCTTGCTTTC
*
21739 TCTTTTTGAATTTTCTT-TTTCTTTTCTTTT-AT
1 TCTTTTTGAATTTTCTTCTTT-TTGTCTTTTCAT
* *
21771 TCTTTTCTGATTTTTCTTCTTTTTGTCTTTTCTT
1 TCTTTT-TGAATTTTCTTCTTTTTGTCTTTTCAT
21805 TCTTTTTG
1 TCTTTTTG
21813 CACTCCAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
32 6 0.17
33 20 0.56
34 10 0.28
ACGTcount: A:0.05, C:0.15, G:0.05, T:0.74
Consensus pattern (33 bp):
TCTTTTTGAATTTTCTTCTTTTTGTCTTTTCAT
Found at i:21790 original size:17 final size:16
Alignment explanation
Indices: 21735--21812 Score: 63
Period size: 17 Copynumber: 4.8 Consensus size: 16
21725 CTTGGCTTGC
**
21735 TTTC-TCTTTTTGAAT
1 TTTCTTCTTTTTGTCT
*
21750 TTTCTT-TTTCTTTTCT
1 TTTCTTCTTT-TTGTCT
*
21766 TTTATTCTTTTCTGAT-T
1 TTTCTTCTTTT-TG-TCT
21783 TTTCTTCTTTTTGTCT
1 TTTCTTCTTTTTGTCT
21799 TTTCTTTCTTTTTG
1 TTTC-TTCTTTTTG
21813 CACTCCAATT
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
15 8 0.16
16 17 0.34
17 24 0.48
18 1 0.02
ACGTcount: A:0.05, C:0.15, G:0.05, T:0.74
Consensus pattern (16 bp):
TTTCTTCTTTTTGTCT
Found at i:24184 original size:16 final size:17
Alignment explanation
Indices: 24163--24198 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
24153 TTAACGCTGT
24163 TTTAAAATTAAATT-AA
1 TTTAAAATTAAATTGAA
*
24179 TTTAAATTTAAATTGAA
1 TTTAAAATTAAATTGAA
24196 TTT
1 TTT
24199 TTTTCATATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
TTTAAAATTAAATTGAA
Found at i:25186 original size:19 final size:20
Alignment explanation
Indices: 25140--25186 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
25130 ATTTGTTTTT
* *
25140 AATAAATTTTTATTTATGAA
1 AATAAAATTTTATTTATCAA
*
25160 ATTAAAATTTTATTT-TCAA
1 AATAAAATTTTATTTATCAA
25179 AATAAAAT
1 AATAAAAT
25187 ATAAAAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (20 bp):
AATAAAATTTTATTTATCAA
Found at i:29030 original size:28 final size:28
Alignment explanation
Indices: 28997--29059 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 28
28987 TGTTCAACGT
28997 ATGTTTATTT-TTTTAAGTTTAGTGTCTA
1 ATGTTTATTTATTTTAA-TTTAGTGTCTA
* *
29025 ATGTTTTTTTTATTTTAATTTGGTGTCTA
1 ATG-TTTATTTATTTTAATTTAGTGTCTA
29054 ATGTTT
1 ATGTTT
29060 CATTCCGTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 6 0.19
29 19 0.61
30 6 0.19
ACGTcount: A:0.19, C:0.03, G:0.14, T:0.63
Consensus pattern (28 bp):
ATGTTTATTTATTTTAATTTAGTGTCTA
Found at i:33625 original size:13 final size:13
Alignment explanation
Indices: 33607--33635 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
33597 CCACCGTACT
33607 CCGCCGCCGGCCA
1 CCGCCGCCGGCCA
33620 CCGCCGCCGGCCA
1 CCGCCGCCGGCCA
33633 CCG
1 CCG
33636 TAACGGTGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.07, C:0.62, G:0.31, T:0.00
Consensus pattern (13 bp):
CCGCCGCCGGCCA
Found at i:34374 original size:3 final size:3
Alignment explanation
Indices: 34368--34433 Score: 73
Period size: 3 Copynumber: 22.0 Consensus size: 3
34358 AATAATTATT
* *
34368 TAA TAA TAA T-A TAC TAA TAA TAA TATT TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
*
34413 TAA -ATT TAA TAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA
34434 ATTTAAATGA
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
2 3 0.06
3 47 0.89
4 3 0.06
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:34397 original size:27 final size:25
Alignment explanation
Indices: 34357--34433 Score: 120
Period size: 24 Copynumber: 3.0 Consensus size: 25
34347 TTTGGGCTTG
34357 TAATAATTATTTAATAATAATATACTAA
1 TAATAA-TATTTAATAATAATA-A-TAA
34385 TAATAATATTTAATAATAATAATAA
1 TAATAATATTTAATAATAATAATAA
34410 TAATAA-ATTTAATAATAATAATAA
1 TAATAATATTTAATAATAATAATAA
34434 ATTTAAATGA
Statistics
Matches: 49, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
24 18 0.37
25 9 0.18
26 1 0.02
27 15 0.31
28 6 0.12
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.40
Consensus pattern (25 bp):
TAATAATATTTAATAATAATAATAA
Found at i:34759 original size:76 final size:76
Alignment explanation
Indices: 34558--35277 Score: 1318
Period size: 76 Copynumber: 9.5 Consensus size: 76
34548 GATGGAAATG
* * *
34558 TTTGAAAACATCACGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
34623 CCCGAAGGCTT
66 CCCGAAGGCTT
34634 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTG-AAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
34698 CCCGAAGGCTT
66 CCCGAAGGCTT
* *
34709 TTTGGAAACGTCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTTGAAAACATCAAAAAGC
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG-CTTTGAAAACATCAAAAAGC
34774 TCCCGAAGGCTT
65 TCCCGAAGGCTT
34786 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
34851 CCCGAAGGCTT
66 CCCGAAGGCTT
*
34862 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
34927 CCCGAAGGCTT
66 CCCGAAGGCTT
*
34938 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
35003 CCCGAAGGCTT
66 CCCGAAGGCTT
*
35014 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTTGAAAACATCAAAAAGC
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG-CTTTGAAAACATCAAAAAGC
35079 TCCCGAAGGCTT
65 TCCCGAAGGCTT
*
35091 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTG-AAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
35155 CCCGAAGGCTT
66 CCCGAAGGCTT
35166 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
*
35231 CTCGAAGGCTT
66 CCCGAAGGCTT
35242 TTTGGAAACATCATGCACTGAAGGACTTACAGATGA
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGA
35278 GGGAAATAGT
Statistics
Matches: 626, Mismatches: 14, Indels: 8
0.97 0.02 0.01
Matches are distributed among these distances:
75 143 0.23
76 340 0.54
77 143 0.23
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (76 bp):
TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
CCCGAAGGCTT
Found at i:35977 original size:22 final size:22
Alignment explanation
Indices: 35952--36006 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
35942 CATAAAGCTT
35952 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
35974 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
35996 TCATCTTTGAA
1 TCATCTTTGAA
36007 GAGTGTAGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:38806 original size:92 final size:92
Alignment explanation
Indices: 38604--39024 Score: 754
Period size: 92 Copynumber: 4.6 Consensus size: 92
38594 TGATTTTAGA
* * * *
38604 GTTCATACCAAATCATATCAGATAATTCAAAGAACACTTCCAGAAGATGCTATGAGCACATT-GT
1 GTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCT
* *
38668 CTTCCAAATTCAATGATTGGTTCTGTG
66 CTTCCAAATTCAATAACTGGTTCTGTG
38695 GTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCT
1 GTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCT
38760 CTTCCAAATTCAATAACTGGTTCTGTG
66 CTTCCAAATTCAATAACTGGTTCTGTG
38787 GTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCT
1 GTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCT
*
38852 CTTCCAAATTCAATAACTGGTTCTCTG
66 CTTCCAAATTCAATAACTGGTTCTGTG
*
38879 GTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATACTATGAGCACATTCCT
1 GTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCT
*
38944 CTTCTAAATTCAATAACTGGTTCTGTG
66 CTTCCAAATTCAATAACTGGTTCTGTG
38971 GTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
1 GTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
39025 GGTCTCCTTA
Statistics
Matches: 318, Mismatches: 11, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
91 59 0.19
92 259 0.81
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.27
Consensus pattern (92 bp):
GTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCT
CTTCCAAATTCAATAACTGGTTCTGTG
Found at i:45991 original size:18 final size:17
Alignment explanation
Indices: 45943--45993 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
45933 AAATACTTGC
*
45943 AAATAAAATAAAACATAT
1 AAAT-AAATAAAAAATAT
*
45961 AAAT-ATTATAAAAATAAT
1 AAATAAATA-AAAAAT-AT
45979 AAATAAATAAAAAAT
1 AAATAAATAAAAAAT
45994 TTGACAAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
16 3 0.11
17 5 0.19
18 16 0.59
19 3 0.11
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (17 bp):
AAATAAATAAAAAATAT
Found at i:47536 original size:13 final size:13
Alignment explanation
Indices: 47518--47546 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
47508 CCACCGTACT
47518 CCGCCGCCGGCCA
1 CCGCCGCCGGCCA
47531 CCGCCGCCGGCCA
1 CCGCCGCCGGCCA
47544 CCG
1 CCG
47547 TAACGATGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.07, C:0.62, G:0.31, T:0.00
Consensus pattern (13 bp):
CCGCCGCCGGCCA
Found at i:48287 original size:3 final size:3
Alignment explanation
Indices: 48281--48346 Score: 73
Period size: 3 Copynumber: 22.0 Consensus size: 3
48271 AATAATTATT
* *
48281 TAA TAA TAA T-A TAC TAA TAA TAA TATT TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
*
48326 TAA -ATT TAA TAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA
48347 ATTTAAATGA
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
2 3 0.06
3 47 0.89
4 3 0.06
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:48310 original size:27 final size:25
Alignment explanation
Indices: 48270--48346 Score: 120
Period size: 24 Copynumber: 3.0 Consensus size: 25
48260 TTTGGGCTTG
48270 TAATAATTATTTAATAATAATATACTAA
1 TAATAA-TATTTAATAATAATA-A-TAA
48298 TAATAATATTTAATAATAATAATAA
1 TAATAATATTTAATAATAATAATAA
48323 TAATAA-ATTTAATAATAATAATAA
1 TAATAATATTTAATAATAATAATAA
48347 ATTTAAATGA
Statistics
Matches: 49, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
24 18 0.37
25 9 0.18
26 1 0.02
27 15 0.31
28 6 0.12
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.40
Consensus pattern (25 bp):
TAATAATATTTAATAATAATAATAA
Found at i:52575 original size:7 final size:7
Alignment explanation
Indices: 52563--52594 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
52553 ACACATCCTC
52563 TTCATTT
1 TTCATTT
52570 TTCATTT
1 TTCATTT
52577 TTCATTT
1 TTCATTT
52584 TTCATTCT
1 TTCATT-T
52592 TTC
1 TTC
52595 TCTAAAAGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 20 0.83
8 4 0.17
ACGTcount: A:0.12, C:0.19, G:0.00, T:0.69
Consensus pattern (7 bp):
TTCATTT
Found at i:53568 original size:3 final size:3
Alignment explanation
Indices: 53560--53622 Score: 83
Period size: 3 Copynumber: 20.3 Consensus size: 3
53550 AACAAATATG
*
53560 TAA TAA TAA TAAA TAT TAA TAA TGAA -AA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA T-AA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA
53606 TAA TAA CTAA TAA TAA T
1 TAA TAA -TAA TAA TAA T
53623 GTTAAATTTG
Statistics
Matches: 54, Mismatches: 2, Indels: 8
0.84 0.03 0.12
Matches are distributed among these distances:
2 2 0.04
3 44 0.81
4 8 0.15
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:54043 original size:134 final size:134
Alignment explanation
Indices: 53795--54373 Score: 675
Period size: 134 Copynumber: 4.3 Consensus size: 134
53785 AAACGTTAAC
* * * * * ** * *
53795 TCATTCCATTGTTCTTTAGGGAATATTAAATCGAGGTAGACTTGTTTTATTGTTACTCAGGGAAT
1 TCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGTAGACTTATTCCACTGTCACTCAGGGAAT
* * *
53860 ATCAAATCTTGAAAGAAAGGGAT-TCGTTATGCTTCTTCTTGAGGGAAAATCAGATCCAGGGACT
66 ATCAAATCTTGAAAGAGAGGGATCT-GTTCTGCTTCTTCTTGAGGGAAAATCAGATCTAGGGA-T
53924 -TTGAT
129 GTTGAT
* * *
53929 TCATTCCACTGTTCATCAGGGAAGATTGAATCGAGGTAAACTTATTCCACTATCACTCAGGGAAT
1 TCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGTAGACTTATTCCACTGTCACTCAGGGAAT
* * * *
53994 ATCAAATCTTGAAAGAGATGGATCTGTTCTGCTTCTTCTTAAGGAAAAATCAGATATAGGGATGT
66 ATCAAATCTTGAAAGAGAGGGATCTGTTCTGCTTCTTCTTGAGGGAAAATCAGATCTAGGGATGT
54059 TGAT
131 TGAT
* * * * * * *
54063 TCATTCAACTATTCTTTAGGGAAGATTGAATTGAGGTAGACTTGTTCCATTGTCACTCAGAGAAT
1 TCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGTAGACTTATTCCACTGTCACTCAGGGAAT
* * ** *
54128 ATTAAATCTTGAAAGAGAGGGATCTGCTCCACTTCTTCTTGAGGGAAAATCAGATCTGGGGAT-T
66 ATCAAATCTTGAAAGAGAGGGATCTGTTCTGCTTCTTCTTGAGGGAAAATCAGATCTAGGGATGT
54192 CTGAT
131 -TGAT
* * * * * *
54197 TCATTCCACTGTTCTTCAAGGAATATTGAATCCAAGCAGACTTATTCCACTG-CTACTTAGGGAA
1 TCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGTAGACTTATTCCACTGTC-ACTCAGGGAA
* * * *
54261 TATCAAATCTAGAAAGAGAGGGATCT-ATCTCGCTTCTTCTTGGGGGAAAATCAGATAT-GAGGA
65 TATCAAATCTTGAAAGAGAGGGATCTGTTCT-GCTTCTTCTTGAGGGAAAATCAGATCTAG-GGA
54324 TGTTGAT
128 TGTTGAT
* *
54331 TAATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTT
1 TCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGTAGACTT
54374 GTTTCTCTTG
Statistics
Matches: 375, Mismatches: 63, Indels: 14
0.83 0.14 0.03
Matches are distributed among these distances:
133 6 0.02
134 367 0.98
135 2 0.01
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.32
Consensus pattern (134 bp):
TCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGTAGACTTATTCCACTGTCACTCAGGGAAT
ATCAAATCTTGAAAGAGAGGGATCTGTTCTGCTTCTTCTTGAGGGAAAATCAGATCTAGGGATGT
TGAT
Found at i:54298 original size:268 final size:268
Alignment explanation
Indices: 53806--54376 Score: 747
Period size: 268 Copynumber: 2.1 Consensus size: 268
53796 CATTCCATTG
* * ** * *
53806 TTCTTTAGGGAATATTAAATCGAGGTAGACTTGTTTTATTGTTACTCAGGGAATATCAAATCTTG
1 TTCTTTAGGGAAGATTGAATCGAGGTAGACTTGTTCCATTGTCACTCAGAGAATATCAAATCTTG
* **
53871 AAAGAAAGGGATTCGTTATGCTTCTTCTTGAGGGAAAATCAGATCCAGGGACTTTGATTCATTCC
66 AAAGAAAGGGATTCGCTACACTTCTTCTTGAGGGAAAATCAGATCCAGGGACTTTGATTCATTCC
* * * *
53936 ACTGTTCATCAGGGAAGATTGAATCGAGGTAAACTTATTCCACTATCACTCAGGGAATATCAAAT
131 ACTGTTCATCAAGGAAGATTGAATCCAAGCAAACTTATTCCACTATCACTCAGGGAATATCAAAT
* * * *
54001 CTTGAAAGAGATGGATCTGTTCTGCTTCTTCTTAAGGAAAAATCAGATAT-AGGGATGTTGATTC
196 CTAGAAAGAGAGGGATCTATTCTGCTTCTTCTTAAGGAAAAATCAGATATGA-GGATGTTGATTA
54065 ATTCAACTA
260 ATTCAACTA
* *
54074 TTCTTTAGGGAAGATTGAATTGAGGTAGACTTGTTCCATTGTCACTCAGAGAATATTAAATCTTG
1 TTCTTTAGGGAAGATTGAATCGAGGTAGACTTGTTCCATTGTCACTCAGAGAATATCAAATCTTG
* * **
54139 AAAGAGAGGGA-TCTGCTCCACTTCTTCTTGAGGGAAAATCAGATCTGGGGA-TTCTGATTCATT
66 AAAGAAAGGGATTC-GCTACACTTCTTCTTGAGGGAAAATCAGATCCAGGGACTT-TGATTCATT
* * * * *
54202 CCACTGTTCTTCAAGGAATATTGAATCCAAGCAGACTTATTCCACT-GCTACTTAGGGAATATCA
129 CCACTGTTCATCAAGGAAGATTGAATCCAAGCAAACTTATTCCACTATC-ACTCAGGGAATATCA
** *
54266 AATCTAGAAAGAGAGGGATCTA-TCTCGCTTCTTCTTGGGGGAAAATCAGATATGAGGATGTTGA
193 AATCTAGAAAGAGAGGGATCTATTCT-GCTTCTTCTTAAGGAAAAATCAGATATGAGGATGTTGA
* *
54330 TTAATTCCACTG
257 TTAATTCAACTA
* *
54342 TTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTT
1 TTCTTTAGGGAAGATTGAATCGAGGTAGACTTGTT
54377 TCTCTTGTCT
Statistics
Matches: 262, Mismatches: 36, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
267 8 0.03
268 253 0.97
269 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (268 bp):
TTCTTTAGGGAAGATTGAATCGAGGTAGACTTGTTCCATTGTCACTCAGAGAATATCAAATCTTG
AAAGAAAGGGATTCGCTACACTTCTTCTTGAGGGAAAATCAGATCCAGGGACTTTGATTCATTCC
ACTGTTCATCAAGGAAGATTGAATCCAAGCAAACTTATTCCACTATCACTCAGGGAATATCAAAT
CTAGAAAGAGAGGGATCTATTCTGCTTCTTCTTAAGGAAAAATCAGATATGAGGATGTTGATTAA
TTCAACTA
Found at i:55600 original size:19 final size:19
Alignment explanation
Indices: 55576--55617 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
55566 CTTGAACCCC
55576 CTTTATTTATTC-TCTTTTT
1 CTTTATTTATTCTTC-TTTT
*
55595 CTTTATTTTTTCTTCTTTT
1 CTTTATTTATTCTTCTTTT
55614 CTTT
1 CTTT
55618 CCTCTTTACT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (19 bp):
CTTTATTTATTCTTCTTTT
Found at i:55667 original size:20 final size:19
Alignment explanation
Indices: 55629--55682 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 19
55619 CTCTTTACTT
*
55629 TTTTCTTTC-TTTATTTAA
1 TTTTCTTTCATTTTTTTAA
55647 TTTTCTTTCATTTTTTATAA
1 TTTTCTTTCATTTTTT-TAA
55667 TTTTCTTTCATTTTTT
1 TTTTCTTTCATTTTTT
55683 CTTCAGGCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
18 9 0.27
19 5 0.15
20 19 0.58
ACGTcount: A:0.15, C:0.11, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTCTTTCATTTTTTTAA
Found at i:57502 original size:23 final size:23
Alignment explanation
Indices: 57467--57517 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
57457 TCAGGACTAT
* *
57467 TATGTAGCACTTCGGTGCAAACC
1 TATGTAGCACTTCAGTGAAAACC
* *
57490 TATGTGGCTCTTCAGTGAAAACC
1 TATGTAGCACTTCAGTGAAAACC
57513 TATGT
1 TATGT
57518 CGTCCTTTGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (23 bp):
TATGTAGCACTTCAGTGAAAACC
Found at i:59178 original size:17 final size:17
Alignment explanation
Indices: 59152--59195 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
59142 GAACATCACA
*
59152 AATTGGAACAAAAATGC
1 AATTGTAACAAAAATGC
59169 AATTGTAACAAAAATGC
1 AATTGTAACAAAAATGC
59186 AATTGTAACA
1 AATTGTAACA
59196 TCCATTCATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.52, C:0.11, G:0.14, T:0.23
Consensus pattern (17 bp):
AATTGTAACAAAAATGC
Found at i:59572 original size:19 final size:18
Alignment explanation
Indices: 59549--59591 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
59539 AATGCAATTG
*
59549 ATTTTTTTTCT-TTTTCAC
1 ATTTTTTTTTTGTTTTC-C
59567 ATTTTTTTTTTGTTTTCC
1 ATTTTTTTTTTGTTTTCC
59585 ATTTTTT
1 ATTTTTT
59592 CATGTCTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 18 0.78
19 5 0.22
ACGTcount: A:0.09, C:0.12, G:0.02, T:0.77
Consensus pattern (18 bp):
ATTTTTTTTTTGTTTTCC
Found at i:65953 original size:3 final size:3
Alignment explanation
Indices: 65945--66010 Score: 80
Period size: 3 Copynumber: 21.3 Consensus size: 3
65935 AAAAAATATG
* *
65945 TAA TAA TAA TAAA TAT TAA TAA TGAA -AA TAA TAA TAA GAA TAA TAA
1 TAA TAA TAA T-AA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA
65991 TAA TAA CTAA TAA TAA TAA T
1 TAA TAA -TAA TAA TAA TAA T
66011 GTTAAATTAG
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
2 2 0.04
3 45 0.82
4 8 0.15
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:66810 original size:97 final size:98
Alignment explanation
Indices: 66637--66829 Score: 361
Period size: 97 Copynumber: 2.0 Consensus size: 98
66627 CAACACGATC
66637 TCCGATATCGCAAATCAGTTTCCAGATTCGCAACGCGAACTTCGACTATCGCATTGCGATTTACA
1 TCCGATATCGCAAATCAGTTTCCAGATTCGCAACGCGAACTTCGACTATCGCATTGCGATTTACA
66702 TATTCGAATTGCGATAGTCCAAGTTCGCGTTCT
66 TATTCGAATTGCGATAGTCCAAGTTCGCGTTCT
*
66735 TCCG-TATCGCAAATCAGTTTCCAGATTCGCAATGCGAACTTCGACTATCGCATTGCGATTTACA
1 TCCGATATCGCAAATCAGTTTCCAGATTCGCAACGCGAACTTCGACTATCGCATTGCGATTTACA
*
66799 TATTCGCATTGCGATAGTCCAAGTTCGCGTT
66 TATTCGAATTGCGATAGTCCAAGTTCGCGTT
66830 GCGATTTTCC
Statistics
Matches: 93, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
97 89 0.96
98 4 0.04
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (98 bp):
TCCGATATCGCAAATCAGTTTCCAGATTCGCAACGCGAACTTCGACTATCGCATTGCGATTTACA
TATTCGAATTGCGATAGTCCAAGTTCGCGTTCT
Found at i:66831 original size:21 final size:21
Alignment explanation
Indices: 66800--66851 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
66790 CGATTTACAT
*
66800 ATTCGCATTGCGATAGTCCAA
1 ATTCGCGTTGCGATAGTCCAA
* **
66821 GTTCGCGTTGCGATTTTCCAA
1 ATTCGCGTTGCGATAGTCCAA
66842 ATTCGCGTTG
1 ATTCGCGTTG
66852 TAATTTATTC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (21 bp):
ATTCGCGTTGCGATAGTCCAA
Found at i:66857 original size:21 final size:23
Alignment explanation
Indices: 66816--66867 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 23
66806 ATTGCGATAG
* *
66816 TCCAAGTTCGCGTTGCGA-TT-T
1 TCCAAATTCGCGTTGCAATTTAT
*
66837 TCCAAATTCGCGTTGTAATTTAT
1 TCCAAATTCGCGTTGCAATTTAT
66860 TCCAAATT
1 TCCAAATT
66868 TGTTTCGATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 15 0.58
22 2 0.08
23 9 0.35
ACGTcount: A:0.23, C:0.21, G:0.15, T:0.40
Consensus pattern (23 bp):
TCCAAATTCGCGTTGCAATTTAT
Found at i:66883 original size:42 final size:41
Alignment explanation
Indices: 66826--66974 Score: 145
Period size: 42 Copynumber: 3.6 Consensus size: 41
66816 TCCAAGTTCG
** *
66826 CGTTGCGATTTTCCAAATTCGCGTTGTAATTTATTCCAAATT
1 CGTTGCGATAGTCCAAATTCGCATTG-AATTTATTCCAAATT
* * * * *
66868 TGTTTCGATAGTCCAAGTTAGCATTGATATTTATTACAAATT
1 CGTTGCGATAGTCCAAATTCGCATTGA-ATTTATTCCAAATT
* * * *
66910 CGTTGCGATAGTCGAAGTTCGTATTGCGATTTATTCCAAATT
1 CGTTGCGATAGTCCAAATTCGCATTG-AATTTATTCCAAATT
* *
66952 CATTGCGATAGTCCAAAATCGCA
1 CGTTGCGATAGTCCAAATTCGCA
66975 ACGACTAGTG
Statistics
Matches: 85, Mismatches: 20, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
41 1 0.01
42 84 0.99
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (41 bp):
CGTTGCGATAGTCCAAATTCGCATTGAATTTATTCCAAATT
Found at i:66968 original size:19 final size:19
Alignment explanation
Indices: 66904--66968 Score: 58
Period size: 19 Copynumber: 3.2 Consensus size: 19
66894 ATATTTATTA
*
66904 CAAATTCGTTGCGATAGTC
1 CAAATTCATTGCGATAGTC
* * *
66923 GAAGTTCGTATTGCGATTTATTC
1 CAAATTC--ATTGCGA--TAGTC
66946 CAAATTCATTGCGATAGTC
1 CAAATTCATTGCGATAGTC
66965 CAAA
1 CAAA
66969 ATCGCAACGA
Statistics
Matches: 35, Mismatches: 7, Indels: 8
0.70 0.14 0.16
Matches are distributed among these distances:
19 13 0.37
21 13 0.37
23 9 0.26
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.34
Consensus pattern (19 bp):
CAAATTCATTGCGATAGTC
Found at i:67070 original size:6 final size:6
Alignment explanation
Indices: 67059--67088 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
67049 CACGTATTAT
67059 CACGAC CACGAC CACGAC CACGAC C-CGAC C
1 CACGAC CACGAC CACGAC CACGAC CACGAC C
67089 CGAGACAGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.30, C:0.53, G:0.17, T:0.00
Consensus pattern (6 bp):
CACGAC
Found at i:67264 original size:42 final size:42
Alignment explanation
Indices: 67213--67300 Score: 167
Period size: 42 Copynumber: 2.1 Consensus size: 42
67203 ACTATGTAGG
*
67213 AACGAATTTGGAATAAATCGCAACGCGAACTTGGACTATCGC
1 AACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGC
67255 AACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGC
1 AACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGC
67297 AACG
1 AACG
67301 CGAACTTCGA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.20
Consensus pattern (42 bp):
AACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGC
Found at i:67295 original size:21 final size:21
Alignment explanation
Indices: 67229--67321 Score: 118
Period size: 21 Copynumber: 4.4 Consensus size: 21
67219 TTTGGAATAA
*
67229 ATCGCAACGCGAACTTGGACT
1 ATCGCAACGCGAACTTCGACT
* * *
67250 ATCGCAA--CGAATTTGGAAT
1 ATCGCAACGCGAACTTCGACT
67269 AAATCGCAACGCGAACTTCGACT
1 --ATCGCAACGCGAACTTCGACT
67292 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
67313 ATCGCAACG
1 ATCGCAACG
67322 AACTTGGAAT
Statistics
Matches: 63, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
19 10 0.16
21 44 0.70
23 9 0.14
ACGTcount: A:0.32, C:0.28, G:0.20, T:0.19
Consensus pattern (21 bp):
ATCGCAACGCGAACTTCGACT
Found at i:67317 original size:42 final size:41
Alignment explanation
Indices: 67213--67321 Score: 121
Period size: 42 Copynumber: 2.6 Consensus size: 41
67203 ACTATGTAGG
* * *
67213 AACGAATTTGGAATAAATCGCAACGCGAACTTGGACTATCGC
1 AACGAACTTCGAAT-AATCGCAACGCGAACTTCGACTATCGC
* *
67255 AACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGC
1 AACGAACTTCGAAT-AATCGCAACGCGAACTTCGACTATCGC
*
67297 AACGCGAACTTCGACT-ATCGCAACG
1 AA--CGAACTTCGAATAATCGCAACG
67322 AACTTGGAAT
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
42 52 0.85
44 9 0.15
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (41 bp):
AACGAACTTCGAATAATCGCAACGCGAACTTCGACTATCGC
Found at i:67338 original size:21 final size:20
Alignment explanation
Indices: 67215--67332 Score: 96
Period size: 21 Copynumber: 5.7 Consensus size: 20
67205 TATGTAGGAA
*
67215 CGAATTTGGAATAAATCGCAAC
1 CGAACTTGGAAT--ATCGCAAC
*
67237 GCGAACTTGGACTATCGCAA-
1 -CGAACTTGGAATATCGCAAC
*
67257 CGAATTTGGAATAAATCGCAAC
1 CGAACTTGGAAT--ATCGCAAC
* *
67279 GCGAACTTCGACTATCGCAAC
1 -CGAACTTGGAATATCGCAAC
* *
67300 GCGAACTTCGACTATCGCAA-
1 -CGAACTTGGAATATCGCAAC
67320 CGAACTTGGAATA
1 CGAACTTGGAATA
67333 AATCGCGTTG
Statistics
Matches: 82, Mismatches: 9, Indels: 12
0.80 0.09 0.12
Matches are distributed among these distances:
19 21 0.26
21 42 0.51
23 19 0.23
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.21
Consensus pattern (20 bp):
CGAACTTGGAATATCGCAAC
Found at i:68113 original size:158 final size:157
Alignment explanation
Indices: 67770--68302 Score: 653
Period size: 157 Copynumber: 3.4 Consensus size: 157
67760 CATGATTTCA
* * * * * *
67770 TTATTTCTTCAATTTC-TC-CTTAATTTTAAGT-TCATTTTCACCAAATTTTAACCACATGCTCT
1 TTATTTCTTCAA-TTCGTCATTTAA-TTTAAGTCT-GTTTTTACCAAATTTGAGCCACATGCTCC
* * * *
67832 TAAACCATAGTAGAATGCATGTTTACTTTCAATTCCTCCTTTCGATAATAA-ATTTTTATTTTTC
63 TAAACCATAGTAGAATACATGTGTACTTTCAATTCCTCTTTTTGATAATAATATTTTTATTTTTC
* * *
67896 AATTTAGTCATTCAATTTTTCATAATCCCC
128 AATTTAGTCCTTTAATTTTTCATAATCACC
* * *
67926 TTATTTCTTCAATTCGTCATTTATTTTAAGCCTGTTGTTTACCAAATTTGAGTCACATGCTCCTA
1 TTATTTCTTCAATTCGTCATTTAATTTAAGTCTGTT-TTTACCAAATTTGAGCCACATGCTCCTA
* * * *
67991 AACCATATTAGAATACATATGAACTTTCAATTCCTCTTTTTGATAATAATTTTTTTATTTTTCAA
65 AACCATAGTAGAATACATGTGTACTTTCAATTCCTCTTTTTGATAATAATATTTTTATTTTTCAA
68056 TTTAGTCCTTTAATTTTTCATAATCACC
130 TTTAGTCCTTTAATTTTTCATAATCACC
* *
68084 TTATTTCTTCATTTCGTCGTTTAATTTAAGTCTGTTTTTACCAAATTTGAGCCACATGCTCCTAA
1 TTATTTCTTCAATTCGTCATTTAATTTAAGTCTGTTTTTACCAAATTTGAGCCACATGCTCCTAA
* * * *
68149 AACATAGTAGAATACATGTGTACTTTCAATTCCTCTTTTTGTTAACAATGTTTTTATTTTTCAAT
66 ACCATAGTAGAATACATGTGTACTTTCAATTCCTCTTTTTGATAATAATATTTTTATTTTTCAAT
* * * * *
68214 TTAGTCCTTTAAATTATCATAAGCTCT
131 TTAGTCCTTTAATTTTTCATAATCACC
* * * * *
68241 TTATTCCTTCAATTCGTCATTT-ATTTGAAGTCTATTTTTTACTAAATTTAAACCACATGCTC
1 TTATTTCTTCAATTCGTCATTTAATTT-AAGTCT-GTTTTTACCAAATTTGAGCCACATGCTC
68303 ATATACCACA
Statistics
Matches: 326, Mismatches: 44, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
155 3 0.01
156 26 0.08
157 202 0.62
158 95 0.29
ACGTcount: A:0.28, C:0.19, G:0.07, T:0.47
Consensus pattern (157 bp):
TTATTTCTTCAATTCGTCATTTAATTTAAGTCTGTTTTTACCAAATTTGAGCCACATGCTCCTAA
ACCATAGTAGAATACATGTGTACTTTCAATTCCTCTTTTTGATAATAATATTTTTATTTTTCAAT
TTAGTCCTTTAATTTTTCATAATCACC
Found at i:68590 original size:2 final size:2
Alignment explanation
Indices: 68583--68612 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
68573 GAAGAATGTA
68583 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
68613 GCTTAGATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:70336 original size:2 final size:2
Alignment explanation
Indices: 70329--70356 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
70319 TAATTAGTGA
70329 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
70357 CCTTAAAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:71385 original size:25 final size:23
Alignment explanation
Indices: 71356--71401 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 23
71346 AATAAATTTC
71356 AACATAAAATATATATTTTTAAATG
1 AACATAAAA-ATAT-TTTTTAAATG
*
71381 AACATGAAAATATTTTTTAAA
1 AACATAAAAATATTTTTTAAA
71402 ATTAAGTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 8 0.40
24 4 0.20
25 8 0.40
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.39
Consensus pattern (23 bp):
AACATAAAAATATTTTTTAAATG
Found at i:71398 original size:24 final size:25
Alignment explanation
Indices: 71356--71403 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
71346 AATAAATTTC
*
71356 AACATAAAATATATATTTTTAAATG
1 AACATAAAATATATATTTTAAAATG
71381 AACATGAAAATAT-T-TTTTAAAAT
1 AACAT-AAAATATATATTTTAAAAT
71404 TAAGTAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 8 0.38
25 6 0.29
26 7 0.33
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.40
Consensus pattern (25 bp):
AACATAAAATATATATTTTAAAATG
Found at i:71437 original size:22 final size:22
Alignment explanation
Indices: 71404--71462 Score: 73
Period size: 22 Copynumber: 2.5 Consensus size: 22
71394 TTTTTAAAAT
*
71404 TAAGTAAATAATAAAATATATTTAA
1 TAAGTTAAT-ATAAAA-ATATTT-A
*
71429 TAAGTTAATATAAAAATATTTT
1 TAAGTTAATATAAAAATATTTA
71451 TAAGTTAATATA
1 TAAGTTAATATA
71463 TATAAAAACA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
22 12 0.38
23 6 0.19
24 6 0.19
25 8 0.25
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (22 bp):
TAAGTTAATATAAAAATATTTA
Found at i:71469 original size:25 final size:25
Alignment explanation
Indices: 71403--71469 Score: 72
Period size: 25 Copynumber: 2.8 Consensus size: 25
71393 TTTTTTAAAA
71403 TTAAG-TAAATA-ATAAAATATATT
1 TTAAGTTAAATATATAAAATATATT
71426 TAATAAGTT-AATATA-AAAATAT-TT
1 T--TAAGTTAAATATATAAAATATATT
71450 TTAAGTTAATATATATAAAA
1 TTAAGTTAA-ATATATAAAA
71470 ACATTATTAG
Statistics
Matches: 37, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
22 6 0.16
23 2 0.05
24 8 0.22
25 19 0.51
26 2 0.05
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.40
Consensus pattern (25 bp):
TTAAGTTAAATATATAAAATATATT
Found at i:71484 original size:26 final size:25
Alignment explanation
Indices: 71436--71488 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
71426 TAATAAGTTA
* *
71436 ATATAAAAATATTTTTAAGTTAATAT
1 ATATAAAAACATTATTAAGTTAA-AT
71462 ATATAAAAACATTATT-AGTTTAAAT
1 ATATAAAAACATTATTAAG-TTAAAT
71487 AT
1 AT
71489 TTATACAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (25 bp):
ATATAAAAACATTATTAAGTTAAAT
Found at i:72881 original size:36 final size:35
Alignment explanation
Indices: 72810--72916 Score: 126
Period size: 36 Copynumber: 3.0 Consensus size: 35
72800 ATTTTAATTT
* * *
72810 ATAAATTTATTCACTAAGCGAATAATTTATTATTA
1 ATAACTTTATTCACTAAGTGAACAATTTATTATTA
*
72845 ATAACTTTATTCACTAAGTGACACCATTTATTATTA
1 ATAACTTTATTCACTAAGTGA-ACAATTTATTATTA
**
72881 ATAAGC-TTATTCACTAAGTGAAGTATCTTATTATTA
1 ATAA-CTTTATTCACTAAGTGAACAAT-TTATTATTA
72917 TTATTATTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
35 22 0.35
36 40 0.63
37 1 0.02
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.42
Consensus pattern (35 bp):
ATAACTTTATTCACTAAGTGAACAATTTATTATTA
Found at i:73750 original size:2 final size:2
Alignment explanation
Indices: 73739--73858 Score: 167
Period size: 2 Copynumber: 61.5 Consensus size: 2
73729 TTGATCCAAT
73739 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
73780 TA TA TA TA TA TA TA TA TA TA TA TA -A TCA CA AA TA -A TA AA AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA
73821 TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
73859 GTTTTTAAAT
Statistics
Matches: 108, Mismatches: 5, Indels: 10
0.88 0.04 0.08
Matches are distributed among these distances:
1 4 0.04
2 103 0.95
3 1 0.01
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:75487 original size:24 final size:24
Alignment explanation
Indices: 75441--75493 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
75431 CATAATTCAA
* * *
75441 GTCAAGTAGCAGATCAGATTCCAT
1 GTCAAGTAGCAGATCAAAATCCAC
* *
75465 GTCAAGTATCATATCAAAATCCAC
1 GTCAAGTAGCAGATCAAAATCCAC
75489 GTCAA
1 GTCAA
75494 AAATCAAATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (24 bp):
GTCAAGTAGCAGATCAAAATCCAC
Found at i:76162 original size:22 final size:22
Alignment explanation
Indices: 76137--76178 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
76127 TTGTTTAATG
*
76137 TCTGGTCAAAGCCGGTCAACGT
1 TCTGGTCAAAGCAGGTCAACGT
*
76159 TCTGGTCAAAGGAGGTCAAC
1 TCTGGTCAAAGCAGGTCAAC
76179 AAATTGTCAA
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:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (22 bp):
TCTGGTCAAAGCAGGTCAACGT
Found at i:76285 original size:31 final size:30
Alignment explanation
Indices: 76220--76348 Score: 176
Period size: 30 Copynumber: 4.4 Consensus size: 30
76210 CTTTTAAAAT
*
76220 AATTACCAAAATAGCACC--TTTCGAATT-
1 AATTCCCAAAATAGCACCTTTTTCGAATTA
*
76247 AATTCCCAAAATAGCACATTTTTTCGAATTA
1 AATTCCCAAAATAGCAC-CTTTTTCGAATTA
76278 AATTCCCAAAATAGCACCTTTTTCGAATTA
1 AATTCCCAAAATAGCACCTTTTTCGAATTA
** *
76308 AATTCCCAAAATAGCACCCATTTCAAATT-
1 AATTCCCAAAATAGCACCTTTTTCGAATTA
76337 AATTCCCAAAAT
1 AATTCCCAAAAT
76349 GTCACCCAGT
Statistics
Matches: 92, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
27 16 0.17
29 12 0.13
30 47 0.51
31 17 0.18
ACGTcount: A:0.40, C:0.23, G:0.05, T:0.31
Consensus pattern (30 bp):
AATTCCCAAAATAGCACCTTTTTCGAATTA
Found at i:76386 original size:13 final size:13
Alignment explanation
Indices: 76368--76392 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
76358 TCAACGAAGT
76368 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
76381 CGGGTCGGGTCA
1 CGGGTCGGGTCA
76393 GTCATCGGGT
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:0.12, C:0.24, G:0.48, T:0.16
Consensus pattern (13 bp):
CGGGTCGGGTCAA
Found at i:76401 original size:17 final size:18
Alignment explanation
Indices: 76356--76409 Score: 56
Period size: 17 Copynumber: 3.0 Consensus size: 18
76346 AATGTCACCC
*
76356 AGTCAACGAAGTCGGGTCG
1 AGTCAACG-GGTCGGGTCG
*
76375 GGTCAACGGGTCGGGTC-
1 AGTCAACGGGTCGGGTCG
* *
76392 AGTCATCGGGTCAGGTCG
1 AGTCAACGGGTCGGGTCG
76410 GAACCGGTCA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
17 14 0.48
18 8 0.28
19 7 0.24
ACGTcount: A:0.19, C:0.22, G:0.41, T:0.19
Consensus pattern (18 bp):
AGTCAACGGGTCGGGTCG
Found at i:79620 original size:84 final size:84
Alignment explanation
Indices: 79518--79684 Score: 325
Period size: 84 Copynumber: 2.0 Consensus size: 84
79508 CCAAATAAGG
*
79518 TCGAAACACCCGATGCATCAGATCCATAAATGCATTAGGGGCATTTGTCAACCCGAATGACATCA
1 TCGAAACACCCGATGCATCAGATCCATAAATGCAGTAGGGGCATTTGTCAACCCGAATGACATCA
79583 CTAAAAACTCATAATGCCA
66 CTAAAAACTCATAATGCCA
79602 TCGAAACACCCGATGCATCAGATCCATAAATGCAGTAGGGGCATTTGTCAACCCGAATGACATCA
1 TCGAAACACCCGATGCATCAGATCCATAAATGCAGTAGGGGCATTTGTCAACCCGAATGACATCA
79667 CTAAAAACTCATAATGCC
66 CTAAAAACTCATAATGCC
79685 CATACCGGGT
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 82 1.00
ACGTcount: A:0.37, C:0.26, G:0.16, T:0.21
Consensus pattern (84 bp):
TCGAAACACCCGATGCATCAGATCCATAAATGCAGTAGGGGCATTTGTCAACCCGAATGACATCA
CTAAAAACTCATAATGCCA
Found at i:82585 original size:31 final size:31
Alignment explanation
Indices: 82491--82598 Score: 112
Period size: 31 Copynumber: 3.5 Consensus size: 31
82481 AGTCGAGGGT
* *
82491 TTTACCTATG-TCTTTCGAGACATATGGACAG
1 TTTACCTAGGTTCTTT-GGGACATATGGACAG
* * ** *
82522 TATACCTATGTTCTAAGGAACATATGGACAG
1 TTTACCTAGGTTCTTTGGGACATATGGACAG
*
82553 TTTACCTAGGTTCTTTGGGACCTATGGACAG
1 TTTACCTAGGTTCTTTGGGACATATGGACAG
*
82584 TTT-CCGAGGTTCTTT
1 TTTACCTAGGTTCTTT
82599 ATGACCTCTG
Statistics
Matches: 64, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
30 11 0.17
31 50 0.78
32 3 0.05
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (31 bp):
TTTACCTAGGTTCTTTGGGACATATGGACAG
Found at i:82605 original size:30 final size:31
Alignment explanation
Indices: 82513--82619 Score: 94
Period size: 31 Copynumber: 3.5 Consensus size: 31
82503 TTTCGAGACA
* * * * *
82513 TATGGACAGTATACCTATGTTC-TAAGGAACA
1 TATGGACAGTTTACCGAGGTTCTTTAGG-ACC
* *
82544 TATGGACAGTTTACCTAGGTTCTTTGGGACC
1 TATGGACAGTTTACCGAGGTTCTTTAGGACC
*
82575 TATGGACAGTTT-CCGAGGTTCTTTATGACC
1 TATGGACAGTTTACCGAGGTTCTTTAGGACC
* *
82605 TCTGGATAG-TTACCG
1 TATGGACAGTTTACCG
82620 GGGTCTGTGT
Statistics
Matches: 64, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
29 2 0.03
30 25 0.39
31 34 0.53
32 3 0.05
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (31 bp):
TATGGACAGTTTACCGAGGTTCTTTAGGACC
Found at i:85066 original size:24 final size:24
Alignment explanation
Indices: 85020--85066 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
85010 CATAATTCAA
* *
85020 GTCAAGTAGCAGATCAGATTCCAT
1 GTCAAGTAGCAGATCAAAATCCAT
* *
85044 GTCAAGTATCATATCAAAATCCA
1 GTCAAGTAGCAGATCAAAATCCA
85067 CGACAAAAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
GTCAAGTAGCAGATCAAAATCCAT
Found at i:85828 original size:30 final size:30
Alignment explanation
Indices: 85787--85915 Score: 165
Period size: 30 Copynumber: 4.4 Consensus size: 30
85777 TTTTTAAAAT
* *
85787 AATTACCAAAATAGTACCTTTTTCGAATTA
1 AATTCCCAAAATAGCACCTTTTTCGAATTA
85817 AATTCCCAAAATAGCA-CTTTTT-GAATTA
1 AATTCCCAAAATAGCACCTTTTTCGAATTA
* * *
85845 AATTCCCAAAATAACACCATTTTAGAATTA
1 AATTCCCAAAATAGCACCTTTTTCGAATTA
* **
85875 AATTCCCGAAATAGCACCCATTTCGAATT-
1 AATTCCCAAAATAGCACCTTTTTCGAATTA
85904 AATTCCCAAAAT
1 AATTCCCAAAAT
85916 GTCACCCGGT
Statistics
Matches: 87, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
28 21 0.24
29 22 0.25
30 44 0.51
ACGTcount: A:0.41, C:0.21, G:0.06, T:0.32
Consensus pattern (30 bp):
AATTCCCAAAATAGCACCTTTTTCGAATTA
Found at i:85873 original size:58 final size:58
Alignment explanation
Indices: 85786--85915 Score: 163
Period size: 58 Copynumber: 2.2 Consensus size: 58
85776 CTTTTTAAAA
* ** * * * *
85786 TAATTACCAAAATAGTACCTTTTTCGAATTAAATTCCCAAAATAGCA-CTTTTTGAAT
1 TAATTCCCAAAATAACACCATTTTAGAATTAAATTCCCAAAATAGCACCATTTCGAAT
*
85843 TAAATTCCCAAAATAACACCATTTTAGAATTAAATTCCCGAAATAGCACCCATTTCGAAT
1 T-AATTCCCAAAATAACACCATTTTAGAATTAAATTCCCAAAATAGCA-CCATTTCGAAT
85903 TAATTCCCAAAAT
1 TAATTCCCAAAAT
85916 GTCACCCGGT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
57 1 0.02
58 40 0.65
59 12 0.19
60 9 0.15
ACGTcount: A:0.41, C:0.21, G:0.06, T:0.32
Consensus pattern (58 bp):
TAATTCCCAAAATAACACCATTTTAGAATTAAATTCCCAAAATAGCACCATTTCGAAT
Found at i:92034 original size:2 final size:2
Alignment explanation
Indices: 92027--92088 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
92017 GAAAAGAATA
92027 AT 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 AT
92069 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
92089 CGTATATGGT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:93257 original size:20 final size:20
Alignment explanation
Indices: 93234--93278 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
93224 CGATATACCA
* *
93234 GGTAACAATATGATAAAATC
1 GGTAACAAAATGATAAAACC
*
93254 GGTATCAAAATGATAAAACC
1 GGTAACAAAATGATAAAACC
93274 GGTAA
1 GGTAA
93279 AAGGTTACCG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.49, C:0.11, G:0.18, T:0.22
Consensus pattern (20 bp):
GGTAACAAAATGATAAAACC
Found at i:93321 original size:182 final size:181
Alignment explanation
Indices: 93022--93495 Score: 693
Period size: 182 Copynumber: 2.6 Consensus size: 181
93012 GATCCAAATT
* *
93022 AAAAATGTGTCGATCCAAAACGATATAACAGGTAAAACTATGACAAAACCGGTAT-AGAAATGAT
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAA-TATGATAAAACCGGTATCA-AAATGAT
* * * *
93086 AAAACCGAT-AAAGCGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACT
64 AAAACCGGTAAAAG-GATACCGGATATATTTAAAGTGTCGATACTTTAATATAAGGATCGACACT
* * *
93150 TCGTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTTA
128 TCGTGAATTTAAAAGAGAAACAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
* *
93204 AAAAATGTATCGATCCAAAACGATATACCAGGTAACAATATGATAAAATCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAA-AATATGATAAAACCGGTATCAAAATGATA
*
93269 AAACCGGTAAAAGGTTACCGGATATATTTAACAGTGTCGATACTTT-ATATAAGGATCGACACTT
65 AAACCGGTAAAAGGATACCGGATATATTTAA-AGTGTCGATACTTTAATATAAGGATCGACACTT
* ** *
93333 TGTGAATTTAAAAGAGAAACAGTTTTAGCGCCTATAATGTGTCGATACTTTAA
129 CGTGAATTTAAAAGAGAAACAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
* *
93386 AAAAATATATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGT-AAAATATGATAAAACCGGTATCAAAATGATA
* *
93451 AAACCGGTAAAATGATACCGGATATATTGAAAGTGTCGATACTTT
65 AAACCGGTAAAAGGATACCGGATATATTTAAAGTGTCGATACTTT
93496 CGTAAGTACG
Statistics
Matches: 265, Mismatches: 22, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
181 14 0.05
182 229 0.86
183 22 0.08
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (181 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAATATGATAAAACCGGTATCAAAATGATAA
AACCGGTAAAAGGATACCGGATATATTTAAAGTGTCGATACTTTAATATAAGGATCGACACTTCG
TGAATTTAAAAGAGAAACAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
Found at i:93439 original size:20 final size:19
Alignment explanation
Indices: 93416--93462 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
93406 CGATATAACA
93416 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
93436 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
93456 GGTAAAA
1 GGTAAAA
93463 TGATACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:93464 original size:17 final size:19
Alignment explanation
Indices: 93425--93467 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
93415 AGGTAAAAAT
93425 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
93445 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
93462 ATGATA
1 ATGATA
93468 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:95690 original size:21 final size:21
Alignment explanation
Indices: 95666--95709 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
95656 AAGACAATCA
95666 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
95687 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
95708 AG
1 AG
95710 GTATAAGGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.11, G:0.32, T:0.16
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:95786 original size:33 final size:33
Alignment explanation
Indices: 95743--95808 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
95733 AAATAGATGG
* *
95743 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGCGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
95776 AGTGGCGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGCGAAAGAAGTAGAGGTGTTAAGGGGTGA
95809 TATTAAGATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.29, C:0.02, G:0.48, T:0.21
Consensus pattern (33 bp):
AGTGGCGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:97624 original size:19 final size:19
Alignment explanation
Indices: 97600--97648 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
97590 AATGTAGGGT
97600 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
97619 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
97638 TATTTTTGTAT
1 TAATTTTGTAT
97649 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:98108 original size:199 final size:198
Alignment explanation
Indices: 97767--99137 Score: 2400
Period size: 199 Copynumber: 6.9 Consensus size: 198
97757 CAATATGGCC
*
97767 AACAGGGTGCAACCATAAAGTGTCGAACCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG-AAC
97832 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
97897 GAATATGTCTAAATAATGTGTCGACACTTGTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACTT-TTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
97962 TGGAA
194 TGGAA
97967 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
*
98032 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACTGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
*
98097 AATATGTCTAAATAATGTATCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACAC-TTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAAT
98162 GGAA
195 GGAA
* *
98166 AACAGTGTGCAACCATAAGGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG-AAC
*
98231 CCAAAAGTATAATGTAATATGTAATTTTTCAATCAAACCGGTACAAGTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
98296 GAATATGTCTAAATAATGTGTCGACACTTGTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACTT-TTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
98361 TGGAA
194 TGGAA
*
98366 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGGCGATCCCAAAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
98431 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
*
98496 AATATATCTAAATAATGTGTCGACACTTGTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTT-TTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAAT
98561 GGAA
195 GGAA
*
98565 AACAAGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
*
98630 CAAAAGTATAATGTAATATGTAATTTTTTAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
* * ***** *
98695 AATATGTCTAAATAATGTGTCGACACCATTTAAAAAAATGTCGATATTTTTGGTCCAAAATGAAT
131 AATATGTCTAAATAATGTGTCGACA-CTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAAT
98760 GGAA
195 GGAA
*
98764 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCTAAAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
*
98829 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACTGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
* * ** *
98894 AATATGTCTAAATAATGTGTCGACACCATTTAAAATAGTGTCGATATTTTTGGTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACA-CTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAAT
98959 GGAA
195 GGAA
* *
98963 AACAGTGTGCAACCATAAGGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
*
99028 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAATCGGTACAAGTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
* *
99093 AATATGTCTAAATAATGTGTCAACACTTTTTATTTTGTGTCGATA
131 AATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTCGATA
99138 CTAATTTAAA
Statistics
Matches: 1124, Mismatches: 43, Indels: 10
0.95 0.04 0.01
Matches are distributed among these distances:
198 15 0.01
199 855 0.76
200 254 0.23
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (198 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATG
GAA
Found at i:100612 original size:6 final size:6
Alignment explanation
Indices: 100601--100682 Score: 65
Period size: 6 Copynumber: 13.7 Consensus size: 6
100591 CAAGCGGTCA
* * * * *
100601 ATGAAG ATGAAG CTGACG ATGAAG ATGACG ATGATG ATGACG ATGAAG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
* * * * * *
100649 CTGACG ATGAAT ATGATG ATGATG ATGATG ATGA
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGA
100683 TAATGATGAT
Statistics
Matches: 61, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 61 1.00
ACGTcount: A:0.38, C:0.07, G:0.32, T:0.23
Consensus pattern (6 bp):
ATGAAG
Found at i:100623 original size:12 final size:12
Alignment explanation
Indices: 100601--100682 Score: 92
Period size: 12 Copynumber: 6.8 Consensus size: 12
100591 CAAGCGGTCA
*
100601 ATGAAGATGAAG
1 ATGACGATGAAG
*
100613 CTGACGATGAAG
1 ATGACGATGAAG
*
100625 ATGACGATGATG
1 ATGACGATGAAG
100637 ATGACGATGAAG
1 ATGACGATGAAG
* *
100649 CTGACGATGAAT
1 ATGACGATGAAG
* *
100661 ATGATGATGATG
1 ATGACGATGAAG
*
100673 ATGATGATGA
1 ATGACGATGA
100683 TAATGATGAT
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 59 1.00
ACGTcount: A:0.38, C:0.07, G:0.32, T:0.23
Consensus pattern (12 bp):
ATGACGATGAAG
Found at i:100638 original size:3 final size:3
Alignment explanation
Indices: 100618--100698 Score: 83
Period size: 3 Copynumber: 27.0 Consensus size: 3
100608 TGAAGCTGAC
* * * * * *
100618 GAT GAA GAT GAC GAT GAT GAT GAC GAT GAA GCT GAC GAT GAAT -AT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G-AT GAT
*
100663 GAT GAT GAT GAT GAT GAT GAT AAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
100699 TCAAACAAGT
Statistics
Matches: 62, Mismatches: 14, Indels: 4
0.77 0.17 0.05
Matches are distributed among these distances:
2 2 0.03
3 58 0.94
4 2 0.03
ACGTcount: A:0.37, C:0.05, G:0.31, T:0.27
Consensus pattern (3 bp):
GAT
Found at i:100653 original size:36 final size:36
Alignment explanation
Indices: 100601--100682 Score: 128
Period size: 36 Copynumber: 2.3 Consensus size: 36
100591 CAAGCGGTCA
100601 ATGAAGATGAAGCTGACGATGAAGATGACGATGATG
1 ATGAAGATGAAGCTGACGATGAAGATGACGATGATG
* * *
100637 ATGACGATGAAGCTGACGATGAATATGATGATGATG
1 ATGAAGATGAAGCTGACGATGAAGATGACGATGATG
*
100673 ATGATGATGA
1 ATGAAGATGA
100683 TAATGATGAT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.38, C:0.07, G:0.32, T:0.23
Consensus pattern (36 bp):
ATGAAGATGAAGCTGACGATGAAGATGACGATGATG
Found at i:101912 original size:16 final size:16
Alignment explanation
Indices: 101891--101924 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
101881 TATCCACAAC
*
101891 AAAGTGTCGATTTAAA
1 AAAGTGTCGATTGAAA
101907 AAAGTGTCGATTGAAA
1 AAAGTGTCGATTGAAA
101923 AA
1 AA
101925 TGTAATAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.47, C:0.06, G:0.21, T:0.26
Consensus pattern (16 bp):
AAAGTGTCGATTGAAA
Found at i:102317 original size:23 final size:23
Alignment explanation
Indices: 102286--102358 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
102276 ATAAGTAAAA
*
102286 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
102309 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
102332 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
102355 ATAT
1 ATAT
102359 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:102748 original size:23 final size:23
Alignment explanation
Indices: 102717--102789 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
102707 ATAGGTAAAA
*
102717 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
102740 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
102763 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
102786 ATAT
1 ATAT
102790 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:102891 original size:431 final size:431
Alignment explanation
Indices: 102078--103132 Score: 1981
Period size: 431 Copynumber: 2.5 Consensus size: 431
102068 CATTGGTTAA
* *
102078 TATTGTTAAA-TAAAAATTATAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
1 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
102142 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATACTTAAAAAAAATTGA
66 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATACTTAAAAAAAATTGA
* * *
102207 AACATAAATTATATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAATTATGGACACTTTCAA
131 AACATAAATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAA
102272 TATAATAAGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATA
196 TATAATAAGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATA
102337 ATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTT
261 ATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTT
102402 CACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATT
326 CACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATT
*
102467 ATAGGCGTCTAATGATTTCTTTTTTACGTTACGATATATAT
391 ATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATAT
102508 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
1 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
* *
102573 TGCAAATGAAATTATTAAATTAATATTGTAGATGTAAAACATGAAACACTA-TTAAAAAAAATTG
66 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACA-TACTTAAAAAAAATTG
102637 AAACATAAATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCA
130 AAACATAAATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCA
*
102702 ATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATAT
195 ATATAATAAGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATAT
*
102767 AATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTTTATACTTTTT
260 AATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTT
102832 TCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
325 TCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
102897 TATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATAT
390 TATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATAT
102939 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
1 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
103004 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATACTT-AAAAAAATTGA
66 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATACTTAAAAAAAATTGA
*
103068 AACATAAATTACATAACTTTAAAAGAAGTATCGATCTTTTTTATAAAAAGTATGGACACTTTCAA
131 AACATAAATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAA
103133 CATATTATAA
Statistics
Matches: 609, Mismatches: 13, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
430 86 0.14
431 521 0.86
432 2 0.00
ACGTcount: A:0.42, C:0.07, G:0.12, T:0.39
Consensus pattern (431 bp):
TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATACTTAAAAAAAATTGA
AACATAAATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAA
TATAATAAGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATA
ATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTT
CACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATT
ATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATAT
Found at i:105783 original size:25 final size:25
Alignment explanation
Indices: 105755--105819 Score: 121
Period size: 25 Copynumber: 2.6 Consensus size: 25
105745 TTATCATTAA
105755 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
105780 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
105805 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
105820 TCTTTTGAGT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.37
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:106138 original size:23 final size:23
Alignment explanation
Indices: 106107--106179 Score: 112
Period size: 23 Copynumber: 3.2 Consensus size: 23
106097 ATAGGTAAAA
*
106107 ATATGATGTAATAGGTAGTGTTT
1 ATATAATGTAATAGGTAGTGTTT
106130 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GTTT
*
106153 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGTTT
106176 ATAT
1 ATAT
106180 TGTAAAATAT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
22 1 0.02
23 44 0.96
24 1 0.02
ACGTcount: A:0.34, C:0.01, G:0.22, T:0.42
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGTTT
Found at i:106204 original size:46 final size:45
Alignment explanation
Indices: 106107--106204 Score: 108
Period size: 46 Copynumber: 2.1 Consensus size: 45
106097 ATAGGTAAAA
* * * *
106107 ATATGATGTAATAGGTAGTGTTTATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGTGGTTATAT-ATGTAATAGCTATCCTTT
*
106153 ATATAATGTAATAGGTAGTGGTTATAT-TGTAAAATATCTATCCTTT
1 ATATAATGTAATAGGTAGTGGTTATATATGT--AATAGCTATCCTTT
*
106199 TTATAA
1 ATATAA
106205 AAGTGTCTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
44 3 0.07
46 41 0.93
ACGTcount: A:0.35, C:0.04, G:0.17, T:0.44
Consensus pattern (45 bp):
ATATAATGTAATAGGTAGTGGTTATATATGTAATAGCTATCCTTT
Found at i:106569 original size:23 final size:23
Alignment explanation
Indices: 106538--106610 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
106528 ATAGGTAAAA
*
106538 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
106561 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
106584 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
106607 ATAT
1 ATAT
106611 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:106628 original size:431 final size:431
Alignment explanation
Indices: 105819--107638 Score: 3448
Period size: 431 Copynumber: 4.2 Consensus size: 431
105809 AGGTATATAC
105819 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTCTTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTCTTTTTTAC
105884 GTTACGATATATATTATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAAT
66 GTTACGATATATATTATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAAT
*
105949 CAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTAGAAAACATGAAACACTA
131 CAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTA
106014 TTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGT
196 TTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGT
* *
106079 ATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGTGTTTATATAATGTAATAG
261 ATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAG
*
106144 GTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAATATCTATCCTTTTTATAAAAGT
326 GTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGT
106209 GTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
391 GTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
106250 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTCTTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTCTTTTTTAC
106315 GTTACGATATATATTATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAAT
66 GTTACGATATATATTATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAAT
*
106380 CAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTA
131 CAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTA
106445 TTAAAAAAAATTGAAACATAAATTACATAACTTTAAACA-AAGTATCGATCCTTTTTATAAAAAG
196 TTAAAAAAAATTGAAACATAAATTACATAACTTTAAA-AGAAGTATCGATCCTTTTTATAAAAAG
106509 TATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATA
260 TATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATA
*
106574 GGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATTTATCCTTTTTATAAAAG
325 GGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAG
* *
106639 TGTCTATATTTTTTTCACTGTGTAAAACATTAATTTAAGGTT
390 TGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
106681 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTCTTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTCTTTTTTAC
106746 GTTACGATATATATTATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAAT
66 GTTACGATATATATTATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAAT
106811 CAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACA-TA
131 CAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTA
* *
106875 CTTAAAAAAAATTGAAACAAAAATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAG
196 -TTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAG
*
106940 TATGAACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATA
260 TATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATA
*
107005 GGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATATATCCTTTTTATAAAAG
325 GGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAG
107070 TGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
390 TGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
*
107112 ATCTTTTGAGTGAGTTTTAATATATTAATTTAGTAATTATAGGCGTCTAATGATTTCTTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTCTTTTTTAC
107177 GTTACGATATATATTATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAAT
66 GTTACGATATATATTATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAAT
107242 CAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTA
131 CAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTA
107307 TTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGAT-CTGTTTTATAAAAAG
196 TTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCT-TTTTATAAAAAG
107371 TATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATA
260 TATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATA
* *
107436 GGTATCGTTTATATAATGTAATAGGTAGTGATTATATTGTAAAGTATCTATCATTTTTATAAAAG
325 GGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAG
107501 TGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
390 TGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
*
107543 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTCTTTTTTTC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTCTTTTTTAC
107608 GTTACGATATATATTATTATTAAATTAAAAA
66 GTTACGATATATATTATTATTAAATTAAAAA
107639 CAATAAACAT
Statistics
Matches: 1360, Mismatches: 24, Indels: 10
0.98 0.02 0.01
Matches are distributed among these distances:
430 4 0.00
431 1353 0.99
432 3 0.00
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.40
Consensus pattern (431 bp):
ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTCTTTTTTAC
GTTACGATATATATTATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAAT
CAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTA
TTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGT
ATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAG
GTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGT
GTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
Found at i:107000 original size:23 final size:23
Alignment explanation
Indices: 106969--107041 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
106959 ATAGGTAAAA
*
106969 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
106992 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
107015 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
107038 ATAT
1 ATAT
107042 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:107431 original size:23 final size:23
Alignment explanation
Indices: 107400--107472 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
107390 ATAGGTAAAA
* *
107400 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGATT
* *
107423 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGATT
*
107446 ATATAATGTAATAGGTAGTGATT
1 ATATAATGTAATAGGTAGCGATT
107469 ATAT
1 ATAT
107473 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.36, C:0.04, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGATT
Found at i:107978 original size:23 final size:23
Alignment explanation
Indices: 107949--107996 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
107939 AAATAGGTAA
*
107949 ATATAAGCGCTACCTATTACATT
1 ATATAAGCGCTACCTAGTACATT
*
107972 ATATAAGCGCTACCTAGTATATT
1 ATATAAGCGCTACCTAGTACATT
107995 AT
1 AT
107997 TGTACTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.35
Consensus pattern (23 bp):
ATATAAGCGCTACCTAGTACATT
Found at i:110434 original size:30 final size:30
Alignment explanation
Indices: 110378--110491 Score: 174
Period size: 30 Copynumber: 3.8 Consensus size: 30
110368 AAGATGGTTA
* * *
110378 TATGCATGAACATCTTTAAATATGATGATTC
1 TATGCATGAACATC-TTAAATGTGATGACTG
*
110409 TATGCATGATCATCTTAAATGTGATGACTG
1 TATGCATGAACATCTTAAATGTGATGACTG
*
110439 TATGCATGATCATCTTAAATGTGATGACTG
1 TATGCATGAACATCTTAAATGTGATGACTG
110469 TATGCATGAACATCTTAAATGTG
1 TATGCATGAACATCTTAAATGTG
110492 GACATAAAAC
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
30 65 0.83
31 13 0.17
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (30 bp):
TATGCATGAACATCTTAAATGTGATGACTG
Found at i:113026 original size:30 final size:29
Alignment explanation
Indices: 112992--113096 Score: 84
Period size: 30 Copynumber: 3.5 Consensus size: 29
112982 GTGGCGTCAC
112992 ATGTGAACATGTCACGTCAATATTTAGTCT
1 ATGTGAAC-TGTCACGTCAATATTTAGTCT
** * *
113022 ATGTGAATCTACCACGTCAGTATTTAGTTT
1 ATGTGAA-CTGTCACGTCAATATTTAGTCT
** * *
113052 ATGTGGTTCTGTCAAGTCAACATTTAGTCT
1 ATGT-GAACTGTCACGTCAATATTTAGTCT
* *
113082 ACGTGTATCTGTCAC
1 ATGTG-AACTGTCAC
113097 ATCATCAACT
Statistics
Matches: 57, Mismatches: 15, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
29 1 0.02
30 54 0.95
31 2 0.04
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (29 bp):
ATGTGAACTGTCACGTCAATATTTAGTCT
Found at i:113334 original size:2 final size:2
Alignment explanation
Indices: 113327--113369 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
113317 CTACATCCTC
113327 AT 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 AT
113369 A
1 A
113370 ATAACATAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:115148 original size:21 final size:21
Alignment explanation
Indices: 115123--115166 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
115113 AATTTAGTTA
115123 ATTAGTTTGTTAGTATAAATT
1 ATTAGTTTGTTAGTATAAATT
*
115144 ATTAGTTTGTTAGTTTAAATT
1 ATTAGTTTGTTAGTATAAATT
115165 AT
1 AT
115167 ATTATATTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.55
Consensus pattern (21 bp):
ATTAGTTTGTTAGTATAAATT
Found at i:115176 original size:28 final size:30
Alignment explanation
Indices: 115143--115205 Score: 103
Period size: 28 Copynumber: 2.2 Consensus size: 30
115133 TAGTATAAAT
115143 TATTAGTTTGTTAGTTTAA-AT-TATATTA
1 TATTAGTTTGTTAGTTTAAGATATATATTA
*
115171 TATTAGTTTGTTAGTTTAAGTTATATATTA
1 TATTAGTTTGTTAGTTTAAGATATATATTA
115201 TATTA
1 TATTA
115206 TATTATATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 19 0.59
29 1 0.03
30 12 0.38
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (30 bp):
TATTAGTTTGTTAGTTTAAGATATATATTA
Found at i:115204 original size:5 final size:5
Alignment explanation
Indices: 115194--115218 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
115184 GTTTAAGTTA
115194 TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT
115219 AAAAAATTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:119207 original size:49 final size:49
Alignment explanation
Indices: 119119--119310 Score: 312
Period size: 49 Copynumber: 3.9 Consensus size: 49
119109 AATAATTATT
119119 TAGTAATGATTAGTAATAATAAAATTATTATTATTAATATTTAATGATTTGG
1 TAGTAATGATTAGTAATAAT-AAA--ATTATTATTAATATTTAATGATTTGG
*
119171 TAGTAATTATTAGTAATAATAAAATTATTATTAATATTTAATGATTTGG
1 TAGTAATGATTAGTAATAATAAAATTATTATTAATATTTAATGATTTGG
*
119220 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGG
1 TAGTAATGATTAGTAATAATAAAATTATTATTAATATTTAATGATTTGG
* * *
119269 TAGTAATGATTAATAATAATTAAATTATTGTTAATATTTAAT
1 TAGTAATGATTAGTAATAATAAAATTATTATTAATATTTAAT
119311 AATTATTTAG
Statistics
Matches: 134, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
49 112 0.84
51 3 0.02
52 19 0.14
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (49 bp):
TAGTAATGATTAGTAATAATAAAATTATTATTAATATTTAATGATTTGG
Found at i:119481 original size:19 final size:18
Alignment explanation
Indices: 119457--119513 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 18
119447 CATAAAAATA
119457 ATTTAATAATGATTTTAAT
1 ATTT-ATAATGATTTTAAT
*
119476 A-TT-TAATGA-TTTGAT
1 ATTTATAATGATTTTAAT
119491 GATTTAGTAATGATTTTAAT
1 -ATTTA-TAATGATTTTAAT
119511 ATT
1 ATT
119514 ATGATTTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
15 5 0.16
16 7 0.23
17 2 0.06
18 2 0.06
19 10 0.32
20 5 0.16
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.53
Consensus pattern (18 bp):
ATTTATAATGATTTTAAT
Found at i:119726 original size:14 final size:14
Alignment explanation
Indices: 119520--119739 Score: 171
Period size: 14 Copynumber: 16.3 Consensus size: 14
119510 TATTATGATT
119520 TAATAATGATTTAA
1 TAATAATGATTTAA
*
119534 TAATAATCA-TT-A
1 TAATAATGATTTAA
119546 TAATAATGATTTAA
1 TAATAATGATTTAA
*
119560 TAATAA--CTTTAA
1 TAATAATGATTTAA
*
119572 TATTTAATGATTTGATGA
1 TA-ATAATGATTT-A--A
* *
119590 TTTAGTAATGATTTTA
1 --TAATAATGATTTAA
*
119606 TAATAATCA-TT-A
1 TAATAATGATTTAA
*
119618 TAATAATGATTAAA
1 TAATAATGATTTAA
119632 TAATAATGATTTAA
1 TAATAATGATTTAA
*
119646 TAATAATCA-TT-A
1 TAATAATGATTTAA
119658 TAATAATGATTTAA
1 TAATAATGATTTAA
* *
119672 TAGTATTGA-TT--
1 TAATAATGATTTAA
119683 TAATAATGA-TT--
1 TAATAATGATTTAA
* *
119694 TAGTAATGATTTTA
1 TAATAATGATTTAA
119708 TAATAATGATTTAA
1 TAATAATGATTTAA
*
119722 TAATAATAATTTAA
1 TAATAATGATTTAA
119736 TAAT
1 TAAT
119740 TATTACTAAT
Statistics
Matches: 167, Mismatches: 22, Indels: 34
0.75 0.10 0.15
Matches are distributed among these distances:
11 17 0.10
12 36 0.22
13 16 0.10
14 81 0.49
15 3 0.02
16 2 0.01
18 1 0.01
19 9 0.05
20 2 0.01
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.45
Consensus pattern (14 bp):
TAATAATGATTTAA
Found at i:119739 original size:11 final size:11
Alignment explanation
Indices: 119489--119725 Score: 123
Period size: 12 Copynumber: 19.2 Consensus size: 11
119479 TAATGATTTG
*
119489 ATGATTTAGTA
1 ATGATTTAATA
119500 ATGATTTTAATA
1 ATGA-TTTAATA
119512 TTATGATTTAATA
1 --ATGATTTAATA
119525 ATGATTTAATAATA
1 ATGA-TT--TAATA
*
119539 ATCATTATAATA
1 ATGATT-TAATA
119551 ATGATTTAATA
1 ATGATTTAATA
*
119562 ATAACTTTAATA
1 ATGA-TTTAATA
* * * * * *
119574 TTTAATGATTTG
1 ATGATTTA-ATA
*
119586 ATGATTTAGTA
1 ATGATTTAATA
119597 ATGATTTTATAATA
1 ATGA--TT-TAATA
*
119611 ATCATTATAATA
1 ATGATT-TAATA
119623 ATGATTAAATAATA
1 ATGATT---TAATA
119637 ATGATTTAATAATA
1 ATGA-TT--TAATA
*
119651 ATCATTATAATA
1 ATGATT-TAATA
119663 ATGATTTAATA
1 ATGATTTAATA
119674 GTATTGATTTAATA
1 --A-TGATTTAATA
*
119688 ATGATTTAGTA
1 ATGATTTAATA
119699 ATGATTTTATAATA
1 ATGA--TT-TAATA
119713 ATGATTTAATA
1 ATGATTTAATA
119724 AT
1 AT
119726 AATAATTTAA
Statistics
Matches: 183, Mismatches: 23, Indels: 40
0.74 0.09 0.16
Matches are distributed among these distances:
11 48 0.26
12 60 0.33
13 16 0.09
14 57 0.31
15 2 0.01
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.46
Consensus pattern (11 bp):
ATGATTTAATA
Found at i:119904 original size:24 final size:24
Alignment explanation
Indices: 119856--119900 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
119846 TATTTGATAC
*
119856 TAATGATTTACTAATTATTATTAA
1 TAATGATTTACTAATTAATATTAA
*
119880 TAATGATTTA-TTATTAATATT
1 TAATGATTTACTAATTAATATT
119901 TAATTATTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.53
Consensus pattern (24 bp):
TAATGATTTACTAATTAATATTAA
Found at i:119907 original size:17 final size:17
Alignment explanation
Indices: 119867--119908 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
119857 AATGATTTAC
119867 TAATTATTATTAATAAT
1 TAATTATTATTAATAAT
* * *
119884 GATTTATTATTAATATT
1 TAATTATTATTAATAAT
119901 TAATTATT
1 TAATTATT
119909 TGATACTAAT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (17 bp):
TAATTATTATTAATAAT
Found at i:119942 original size:59 final size:56
Alignment explanation
Indices: 119824--119950 Score: 148
Period size: 59 Copynumber: 2.2 Consensus size: 56
119814 TCAAATTTAT
* * *
119824 TAATGATTTTTAAATATTTTATTATTTGATACTAATGATTTACTAATTATTATTAA
1 TAATGATTTTTAAATATTTAATTATTTGATACTAATGATTTACTAATGATAATTAA
*
119880 TAATGATTTATTATTAATATTTAATTATTTGATACTAATGATTACTAGTAATGA-AATTATAA
1 TAATGATTT-TTA--AATATTTAATTATTTGATACTAATGATT--TACTAATGATAA-T-TAA
119942 TAATGATTT
1 TAATGATTT
119951 GATACTAAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
56 9 0.15
57 3 0.05
59 27 0.45
60 1 0.02
61 8 0.13
62 12 0.20
ACGTcount: A:0.39, C:0.03, G:0.07, T:0.50
Consensus pattern (56 bp):
TAATGATTTTTAAATATTTAATTATTTGATACTAATGATTTACTAATGATAATTAA
Found at i:122252 original size:30 final size:31
Alignment explanation
Indices: 122218--122284 Score: 77
Period size: 30 Copynumber: 2.2 Consensus size: 31
122208 AAGTTAAACG
122218 TAAACTATTCTTTAA-TATAACTTA-AACTAA
1 TAAACTATT-TTTAATTATAACTTACAACTAA
* * *
122248 TAAACGATTTTTAATTATAATTTACTACTAA
1 TAAACTATTTTTAATTATAACTTACAACTAA
122279 -AAACTA
1 TAAACTA
122285 ATTAACTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
29 5 0.16
30 21 0.68
31 5 0.16
ACGTcount: A:0.46, C:0.12, G:0.01, T:0.40
Consensus pattern (31 bp):
TAAACTATTTTTAATTATAACTTACAACTAA
Found at i:122488 original size:21 final size:21
Alignment explanation
Indices: 122464--122503 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
122454 TTTCTATATG
122464 ATATAACTTAAACTAACAATA
1 ATATAACTTAAACTAACAATA
*
122485 ATATAATTTAAACTAACAA
1 ATATAACTTAAACTAACAA
122504 ACTCATTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.30
Consensus pattern (21 bp):
ATATAACTTAAACTAACAATA
Found at i:122560 original size:26 final size:27
Alignment explanation
Indices: 122531--122592 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 27
122521 TTGTTTTACC
*
122531 CTAATTTATAATAATAAACTAA-TTAA
1 CTAATTTATAACAATAAACTAATTTAA
122557 CTAATAGTTTATAACAATAAACTAATTTAA
1 CT-A-A-TTTATAACAATAAACTAATTTAA
*
122587 ATAATT
1 CTAATT
122593 ATTCTTTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
26 2 0.07
27 3 0.10
28 2 0.07
29 18 0.60
30 5 0.17
ACGTcount: A:0.52, C:0.08, G:0.02, T:0.39
Consensus pattern (27 bp):
CTAATTTATAACAATAAACTAATTTAA
Found at i:122644 original size:30 final size:28
Alignment explanation
Indices: 122592--122651 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 28
122582 TTTAAATAAT
122592 TATTCTTTTATATAACATAAACTAATAAAC
1 TATTCTTTTATATAACATAAACT--TAAAC
* *
122622 TATTTTTTTATTATAATA-AAACTTAAAC
1 TATTCTTTTA-TATAACATAAACTTAAAC
122650 TA
1 TA
122652 CTAATAAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 7 0.26
30 14 0.52
31 6 0.22
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (28 bp):
TATTCTTTTATATAACATAAACTTAAAC
Found at i:122751 original size:27 final size:29
Alignment explanation
Indices: 122716--122780 Score: 82
Period size: 28 Copynumber: 2.3 Consensus size: 29
122706 TATATATAAC
*
122716 TTAACTATTTA-ACTAACT-ACAAACTAA
1 TTAAATATTTAGACTAACTAACAAACTAA
*
122743 TTAAATA-TTAGACTAACTAACACACTAA
1 TTAAATATTTAGACTAACTAACAAACTAA
*
122771 TTAATTATTT
1 TTAAATATTT
122781 TTTAATATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 3 0.09
27 13 0.41
28 14 0.44
29 2 0.06
ACGTcount: A:0.46, C:0.15, G:0.02, T:0.37
Consensus pattern (29 bp):
TTAAATATTTAGACTAACTAACAAACTAA
Found at i:122887 original size:21 final size:21
Alignment explanation
Indices: 122834--122873 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
122824 TTTATGTATG
122834 ATATAACTTAAACTAACAATA
1 ATATAACTTAAACTAACAATA
*
122855 ATAAAACTTAAACTAACAA
1 ATATAACTTAAACTAACAA
122874 ACTAATTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.60, C:0.15, G:0.00, T:0.25
Consensus pattern (21 bp):
ATATAACTTAAACTAACAATA
Found at i:122993 original size:17 final size:18
Alignment explanation
Indices: 122964--122997 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
122954 AACAAACTAA
122964 TAATTTAAAATAATAAAC
1 TAATTTAAAATAATAAAC
122982 TAATTT-AAATAATAAA
1 TAATTTAAAATAATAAA
122998 AAACTTACCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (18 bp):
TAATTTAAAATAATAAAC
Found at i:123001 original size:20 final size:18
Alignment explanation
Indices: 122964--123002 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
122954 AACAAACTAA
*
122964 TAATTTAAAATAATAAAC
1 TAATTTAAAATAAAAAAC
122982 TAATTTAAATAATAAAAAAC
1 TAATTT-AA-AATAAAAAAC
123002 T
1 T
123003 TACCTCGGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 2 0.11
20 10 0.56
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (18 bp):
TAATTTAAAATAAAAAAC
Found at i:123204 original size:23 final size:23
Alignment explanation
Indices: 123169--123257 Score: 133
Period size: 23 Copynumber: 3.9 Consensus size: 23
123159 ACGTGAGCTG
* *
123169 AAGGACTGCAATAATGCATCAAT
1 AAGGGCTGCAATAATGCAGCAAT
* *
123192 AAGGGCTGAAATAATGTAGCAAT
1 AAGGGCTGCAATAATGCAGCAAT
123215 AAGGGCTGCAATAATGCAGCAAT
1 AAGGGCTGCAATAATGCAGCAAT
*
123238 AAGTGCTGCAATAATGCAGC
1 AAGGGCTGCAATAATGCAGC
123258 TGAATTCACA
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 59 1.00
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.20
Consensus pattern (23 bp):
AAGGGCTGCAATAATGCAGCAAT
Done.