Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 126 of 172
Found at i:42133098 original size:38 final size:38
Alignment explanation
Indices: 42133047--42133122 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 38
42133037 AAAAAAATCA
42133047 ACTCATATTGCGAGAAATGAGTTGAACCTCAGGACACG
1 ACTCATATTGCGAGAAATGAGTTGAACCTCAGGACACG
** *
42133085 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
1 ACTCATATTGCGAGAAATGAGTTGAACCTCAGGACACG
42133123 CTGAGGTAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.21
Consensus pattern (38 bp):
ACTCATATTGCGAGAAATGAGTTGAACCTCAGGACACG
Found at i:42133313 original size:78 final size:72
Alignment explanation
Indices: 42133085--42133408 Score: 366
Period size: 78 Copynumber: 4.4 Consensus size: 72
42133075 TCAGGACACG
* *
42133085 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG-TTTTC
1 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA-GCTGAGGTAATTTCAATTTCTGTTTTTA
*
42133149 AAAATTCA
65 AAAAATCA
* ** * * *
42133157 ACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACAGGTTGAGGTATTTTCAATTTTTGTTTTCA
1 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA-GCTGAGGTAATTTCAATTTCTGTTTT--
*
42133222 AAAAAAAATCA
63 -TAAAAAATCA
* * *
42133233 ACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATTTCTGTTT
1 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG---ACA-GCTGAGGTAATTTCAATTTCTG-TT
42133297 TTTAAAAAAAATCA
61 TTT--AAAAAATCA
* * * *
42133311 ACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGAC-GCTGAGGTAATTTCAATTTTTGTTTGTCA
1 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAGCTGAGGTAATTTCAATTTCTGTTTTTAA
42133375 AAAATCA
66 AAAATCA
42133382 ACTCATATTGCGAGAGGTGAGTTGAGC
1 ACTCATATTGCGAGAGGTGAGTTGAGC
42133409 TTCAGATTAC
Statistics
Matches: 215, Mismatches: 26, Indels: 23
0.81 0.10 0.09
Matches are distributed among these distances:
71 34 0.16
72 51 0.24
73 7 0.03
74 20 0.09
75 1 0.00
76 37 0.17
78 60 0.28
79 5 0.02
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (72 bp):
ACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAGCTGAGGTAATTTCAATTTCTGTTTTTAA
AAAATCA
Found at i:42133402 original size:71 final size:71
Alignment explanation
Indices: 42133085--42133408 Score: 373
Period size: 72 Copynumber: 4.4 Consensus size: 71
42133075 TCAGGACACG
*
42133085 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTCA
1 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA-GCTGAGGTAATTTCAATTTCTGTTTTCA
*
42133150 AAATTCA
65 AAAATCA
* ** * * *
42133157 ACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACAGGTTGAGGTATTTTCAATTTTTGTTTTCA
1 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA-GCTGAGGTAATTTCAATTTCTGTTTTC-
42133222 AAAAAAAATCA
64 ---AAAAATCA
* * *
42133233 ACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATTTCTGTTT
1 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG---ACA-GCTGAGGTAATTTCAATTTCTG--T
*
42133297 TTTAAAAAAAATCA
60 TTT--CAAAAATCA
* *
42133311 ACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGAC-GCTGAGGTAATTTCAATTTTTGTTTGTCA
1 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAGCTGAGGTAATTTCAATTTCTGTTT-TCA
42133375 AAAATCA
65 AAAATCA
42133382 ACTCATATTGCGAGAGGTGAGTTGAGC
1 ACTCATATTGCGAGAGGTGAGTTGAGC
42133409 TTCAGATTAC
Statistics
Matches: 216, Mismatches: 23, Indels: 27
0.81 0.09 0.10
Matches are distributed among these distances:
71 34 0.16
72 59 0.27
73 1 0.00
74 20 0.09
75 1 0.00
76 37 0.17
78 59 0.27
79 1 0.00
80 4 0.02
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (71 bp):
ACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAGCTGAGGTAATTTCAATTTCTGTTTTCAA
AAATCA
Found at i:42133430 original size:149 final size:145
Alignment explanation
Indices: 42133085--42133433 Score: 445
Period size: 149 Copynumber: 2.4 Consensus size: 145
42133075 TCAGGACACG
* * * *
42133085 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-GACACGCTGAGGTAATTTCAATTTCTGTTTTC
1 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGTTACACACTGAGGTATTTTCAATTTCTGTTTTA
* * * *
42133149 AAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACAGGTTGAGGTATTTTCAATTTT
66 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA-GCTGAGGTAATTTCAATTTT
42133214 TGTTTTCAAAAAAAAATCA
130 TGTTTTC---AAAAAATCA
* *
42133233 ACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTT-CACATGCTGAGGTATTTTCAATTTCTGTTT
1 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGTTACACA--CTGAGGTATTTTCAATTTCTG--T
*
42133297 TTTAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGAC-GCTGAGGTAATTTCA
62 TTT--AAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAGCTGAGGTAATTTCA
42133361 ATTTTTGTTTGTC-AAAAATCA
125 ATTTTTGTTT-TCAAAAAATCA
* *
42133382 ACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATTACACACTGTGGTATTTT
1 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-TTACACACTGAGGTATTTT
42133434 TTTCAATTCA
Statistics
Matches: 176, Mismatches: 15, Indels: 19
0.84 0.07 0.09
Matches are distributed among these distances:
148 33 0.19
149 48 0.27
150 22 0.12
151 4 0.02
152 27 0.15
153 2 0.01
154 40 0.23
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (145 bp):
ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGTTACACACTGAGGTATTTTCAATTTCTGTTTTA
AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAGCTGAGGTAATTTCAATTTTT
GTTTTCAAAAAATCA
Found at i:42133554 original size:72 final size:74
Alignment explanation
Indices: 42133435--42134042 Score: 487
Period size: 76 Copynumber: 7.9 Consensus size: 74
42133425 TGGTATTTTT
42133435 TTCAA-TTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG-
1 TTCAACTT-ATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
*
42133498 TTTT-CAAAA
65 TTTTAAAAAA
** * * *
42133507 TTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTT
1 TTCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTT
*
42133572 TTCAAAAAAAAAA
66 TT----TAAAAAA
* *
42133585 TT-AACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATTTCT
1 TTCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTCAATTTCT
42133648 GTTTTTAAAAAAAA
63 GTTTTT--AAAAAA
* * ** *
42133662 ATCAACTCATATTGCGAGAAATGAGTTGAACCTCAGGACACGCTGAGGTAATTTCAATTTCTGTT
1 TTCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTT
42133727 TTTAAAAAAAA
66 TTT--AAAAAA
* * ** * *
42133738 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTGGTTTTAATTTATGTT
1 TTCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTT
**
42133803 CATAAAAAA
66 TTTAAAAAA
* * * * *
42133812 TT-AGCTCATATTGCAAGAGGTGAGTTGAGCCT-TGGCTCACACGCTGAGGTATTTTCAATTTCT
1 TTCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTCAATTTCT
*
42133875 GGTTTTCAATTTCTGTTTTTCAAAA
63 -GTTTTTAA------------AAAA
* * * ** * *
42133900 ATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTGGTTTTAATTTATGTT
1 TTCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTT
**
42133965 CATAAAAAA
66 TTTAAAAAA
* * * * *
42133974 TT-AGCTCATATTGCAAGAGGTGAGTTGAGCCT-TGGCTCACACGCTGAGGTATTTTCAATTTCT
1 TTCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTCAATTTCT
*
42134037 GGTTTT
63 GTTTTT
42134043 CAATTTCTGT
Statistics
Matches: 437, Mismatches: 64, Indels: 67
0.77 0.11 0.12
Matches are distributed among these distances:
72 59 0.14
73 60 0.14
74 12 0.03
75 45 0.10
76 102 0.23
77 36 0.08
78 33 0.08
79 30 0.07
86 5 0.01
87 21 0.05
88 5 0.01
89 27 0.06
90 2 0.00
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.34
Consensus pattern (74 bp):
TTCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTT
TTTAAAAAA
Found at i:42133598 original size:206 final size:202
Alignment explanation
Indices: 42133237--42133614 Score: 521
Period size: 206 Copynumber: 1.8 Consensus size: 202
42133227 AAATCAACTT
* *
42133237 ATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTTTCAATTTCTGTTTTTTAA
1 ATATTGCGAGAGGTGAGTTGAGCCTCGG-T-ACACGCTGAGGTAATTTCAATTTCTG-TTTTT-A
* *
42133302 AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACGCTGAGGTAATTTCAATTTTT
62 AAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACGCTGAGGTAATTTCAATTTCT
42133367 GTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATTACACACTGTGGTATT
127 GTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATTACACACTGTGGTATT
42133432 TTTTTCAATTC
192 TTTTTCAATTC
*
42133443 ATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTGAGGTAATTTCAATTTCTG-TTTT-CAA
1 ATATTGCGAGAGGTGAGTTGAGCCTC-GGTACACGCTGAGGTAATTTCAATTTCTGTTTTTAAAA
* * * *
42133505 AATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTG
65 AAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG--ACGCTGAGGTAATTTCAATTTCTG
* *
42133570 TTT-TCAAAAAAAAAATTAACTTATATTGCGAGAGGTGAGTTGAGC
128 TTTGTC-----AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
42133615 CTCGGTTCAC
Statistics
Matches: 153, Mismatches: 11, Indels: 16
0.85 0.06 0.09
Matches are distributed among these distances:
200 38 0.25
201 2 0.01
202 28 0.18
204 24 0.16
206 59 0.39
207 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.34
Consensus pattern (202 bp):
ATATTGCGAGAGGTGAGTTGAGCCTCGGTACACGCTGAGGTAATTTCAATTTCTGTTTTTAAAAA
AATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACGCTGAGGTAATTTCAATTTCTGTTT
GTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATTACACACTGTGGTATTTTTT
TCAATTC
Found at i:42133689 original size:155 final size:148
Alignment explanation
Indices: 42133436--42134121 Score: 550
Period size: 162 Copynumber: 4.4 Consensus size: 148
42133426 GGTATTTTTT
*
42133436 TCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTT
* * * * * *
42133501 TCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATT
66 TAAAAAATCAACTCATATTGCGAGAAATGAGTTGAACCTCAAGACACGCTGAGGTAATTTCAATT
42133566 TCTGTTTTCAAAAAAAAAA
131 TCTGTTTT-AAAAAAAAAA
* * * *
42133585 TTAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATTTCTG
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTCAATTTCTG
*
42133649 TTTTTAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAACCTCAGGACACGCTGAGGTAAT
63 -TTTT---AAAAAATCAACTCATATTGCGAGAAATGAGTTGAACCTCAAGACACGCTGAGGTAAT
*
42133714 TTCAATTTCTGTTTTTAAAAAAAAA
124 TTCAATTTCTGTTTTAAAAAAAAAA
** * *
42133739 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTGGTTTTAATTTATGTTC
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTT-
* * * * ** * ** *
42133804 ATAAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCTTGGC-TCACACGCTGAGGTATTTTC
65 TTAAAAAATCAACTCATATTGCGAGAAATGAGTTGAACC-T--CAAGACACGCTGAGGTAATTTC
***
42133868 AATTTCTGGTTTTCAATTTCTGTTTTTCAAAAA
127 AATTTCT-GTTTT-AA---------AAAAAAAA
* ** * *
42133901 TCGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTGGTTTTAATTTATGTTC
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTT-
* * * * ** * ** *
42133966 ATAAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCTTGGC-TCACACGCTGAGGTATTTTC
65 TTAAAAAATCAACTCATATTGCGAGAAATGAGTTGAACC-T--CAAGACACGCTGAGGTAATTTC
***
42134030 AATTTCTGGTTTTCAATTTCTGTTTTTCAAAAA
127 AATTTCT-GTTTT-AA---------AAAAAAAA
* * *
42134063 TCGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCGATTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
42134122 TCGTTTTTTT
Statistics
Matches: 475, Mismatches: 39, Indels: 33
0.87 0.07 0.06
Matches are distributed among these distances:
148 2 0.00
149 61 0.13
150 1 0.00
151 50 0.11
152 32 0.07
153 1 0.00
154 40 0.08
155 67 0.14
162 221 0.47
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.34
Consensus pattern (148 bp):
TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTT
TAAAAAATCAACTCATATTGCGAGAAATGAGTTGAACCTCAAGACACGCTGAGGTAATTTCAATT
TCTGTTTTAAAAAAAAAA
Found at i:42133723 original size:76 final size:76
Alignment explanation
Indices: 42133436--42134200 Score: 557
Period size: 89 Copynumber: 9.6 Consensus size: 76
42133426 GGTATTTTTT
*
42133436 TCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG-TT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTT
* *
42133500 TT---CAAAAT
66 TTAAAAAAAAA
* ** * * *
42133508 TCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTT
*
42133573 TCAAAAAAAAAA
66 T-TAAAAAAAAA
* * * *
42133585 TTAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATTTCTG
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTCAATTTCTG
42133649 TTTTTAAAAAAAAA
63 TTTTTAAAAAAAAA
** *
42133663 TCAACTCATATTGCGAGAAATGAGTTGAACCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTT
42133728 TTAAAAAAAAA
66 TTAAAAAAAAA
** * *
42133739 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTGGTTTTAATTTATG---
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTT
* *
42133801 TTCATAAAAAA
66 TTAAAAAAAAA
* * * * *
42133812 TTAGCTCATATTGCAAGAGGTGAGTTGAGCCT-TGGCTCACACGCTGAGGTATTTTCAATTTCTG
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTCAATTTCT-
* **
42133876 GTTTTCAATTTCTGTTTTTCAAAAA
62 GTTTTTAA----------AAAAAAA
* ** * *
42133901 TCGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTGGTTTTAATTTATG---
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTT
* *
42133963 TTCATAAAAAA
66 TTAAAAAAAAA
* * * * *
42133974 TTAGCTCATATTGCAAGAGGTGAGTTGAGCCT-TGGCTCACACGCTGAGGTATTTTCAATTTCTG
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTCAATTTCT-
* **
42134038 GTTTTCAATTTCTGTTTTTCAAAAA
62 GTTTTTAA----------AAAAAAA
* * * *
42134063 TCGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCGATTTTCGTTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC-AATTTC-TGT
42134128 TTTTAATTTATGTTTCAAAAAAAA
64 TTTT-A---A------AA-AAAAA
* * *
42134152 TCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCCGAGGTA
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA
42134201 TTTTTAGTTT
Statistics
Matches: 558, Mismatches: 83, Indels: 87
0.77 0.11 0.12
Matches are distributed among these distances:
72 59 0.11
73 75 0.13
75 42 0.08
76 96 0.17
77 34 0.06
78 37 0.07
79 34 0.06
83 2 0.00
86 1 0.00
87 39 0.07
88 14 0.03
89 120 0.22
90 4 0.01
92 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.34
Consensus pattern (76 bp):
TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTT
TTAAAAAAAAA
Found at i:42133836 original size:227 final size:225
Alignment explanation
Indices: 42133436--42134034 Score: 621
Period size: 227 Copynumber: 2.6 Consensus size: 225
42133426 GGTATTTTTT
* ** *
42133436 TCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTT
1 TCAACTCATATTGCGAGAAATGAGTTGAACCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTT
* * * *
42133501 TCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATT
66 TAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATT
* * * * *
42133566 TCTGTTTTCAAAAAAAAAATTAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTG
131 TATG-TTTC-AAAAAAAAATTAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGCTCACACGCTG
*
42133631 AGGTATTTTCAATTTCTGTTTTTAAAAAAAAA
194 AGGTATTTTCAATTTCTGGTTTTAAAAAAAAA
42133663 TCAACTCATATTGCGAGAAATGAGTTGAACCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTT
1 TCAACTCATATTGCGAGAAATGAGTTGAACCTCAGGACACGCTGAGGTAATTTCAATTTCTG-TT
** * *
42133728 TTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTGGTTTT
65 TT---AAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGT-ATTTT
* * *
42133793 -AATTTATG-TTC-ATAAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCTTGGCTCACACG
126 CAATTTATGTTTCAAAAAAAAATTAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGCTCACACG
**
42133855 CTGAGGTATTTTCAATTTCTGGTTTTCAATTTCTGTTTTTCAAAAA
191 CTGAGGTATTTTCAATTTCTGGTTTT-AA----------AAAAAAA
* ** * ** * *
42133901 TCGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTGGTTTTAATTTATGTTC
1 TCAACTCATATTGCGAGAAATGAGTTGAACCTCAGGACACGCTGAGGTAATTTCAATTTCTGTT-
* * * * ** **
42133966 ATAAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCTTGGC-TCACACGCTGAGGTATTTTC
65 TTAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCC-T--CAAGACACGCTGAGGTATTTTC
42134030 AATTT
127 AATTT
42134035 CTGGTTTTCA
Statistics
Matches: 313, Mismatches: 38, Indels: 32
0.82 0.10 0.08
Matches are distributed among these distances:
227 127 0.41
228 6 0.02
229 3 0.01
231 54 0.17
232 4 0.01
235 34 0.11
236 5 0.02
237 19 0.06
238 61 0.19
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.34
Consensus pattern (225 bp):
TCAACTCATATTGCGAGAAATGAGTTGAACCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTT
TAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATT
TATGTTTCAAAAAAAAATTAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAG
GTATTTTCAATTTCTGGTTTTAAAAAAAAA
Found at i:42133882 original size:14 final size:14
Alignment explanation
Indices: 42133863--42133897 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
42133853 CGCTGAGGTA
42133863 TTTTCAATTTCTGG
1 TTTTCAATTTCTGG
*
42133877 TTTTCAATTTCTGT
1 TTTTCAATTTCTGG
42133891 TTTTCAA
1 TTTTCAA
42133898 AAATCGACTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.17, C:0.14, G:0.09, T:0.60
Consensus pattern (14 bp):
TTTTCAATTTCTGG
Found at i:42133922 original size:162 final size:162
Alignment explanation
Indices: 42133713--42134110 Score: 751
Period size: 162 Copynumber: 2.4 Consensus size: 162
42133703 GCTGAGGTAA
* *
42133713 TTTCAATTTCTGTTTTTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTCAATTTCTGTTTTT---CAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
42133778 CGCTGAGGTGGTTTTAATTTATGTTCATAAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCC
63 CGCTGAGGTGGTTTTAATTTATGTTCATAAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCC
42133843 TTGGCTCACACGCTGAGGTATTTTCAATTTCTGGT
128 TTGGCTCACACGCTGAGGTATTTTCAATTTCTGGT
42133878 TTTCAATTTCTGTTTTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
1 TTTCAATTTCTGTTTTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
42133943 TGAGGTGGTTTTAATTTATGTTCATAAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCTTG
66 TGAGGTGGTTTTAATTTATGTTCATAAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCTTG
42134008 GCTCACACGCTGAGGTATTTTCAATTTCTGGT
131 GCTCACACGCTGAGGTATTTTCAATTTCTGGT
42134040 TTTCAATTTCTGTTTTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
1 TTTCAATTTCTGTTTTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
42134105 TGAGGT
66 TGAGGT
42134111 ATTTTCGATT
Statistics
Matches: 231, Mismatches: 2, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
162 214 0.93
165 17 0.07
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (162 bp):
TTTCAATTTCTGTTTTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
TGAGGTGGTTTTAATTTATGTTCATAAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCTTG
GCTCACACGCTGAGGTATTTTCAATTTCTGGT
Found at i:42134044 original size:14 final size:14
Alignment explanation
Indices: 42134025--42134059 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
42134015 CGCTGAGGTA
42134025 TTTTCAATTTCTGG
1 TTTTCAATTTCTGG
*
42134039 TTTTCAATTTCTGT
1 TTTTCAATTTCTGG
42134053 TTTTCAA
1 TTTTCAA
42134060 AAATCGACTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.17, C:0.14, G:0.09, T:0.60
Consensus pattern (14 bp):
TTTTCAATTTCTGG
Found at i:42134373 original size:72 final size:71
Alignment explanation
Indices: 42134256--42134416 Score: 232
Period size: 72 Copynumber: 2.2 Consensus size: 71
42134246 TAAGCCTTTT
* * ** *
42134256 AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
1 AATTTCTG-TTTTCAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGG
42134321 TAATTTC
65 TAATTTC
* *
42134328 AATTTCTGTTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTCTGTTTTCAAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGG
*
42134393 TATTTTC
65 TAATTTC
42134400 AATTTCTGTTTTCAAAA
1 AATTTCTGTTTTCAAAA
42134417 AAAAAAAAAT
Statistics
Matches: 80, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
71 9 0.11
72 71 0.89
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.37
Consensus pattern (71 bp):
AATTTCTGTTTTCAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGT
AATTTC
Found at i:42134508 original size:61 final size:62
Alignment explanation
Indices: 42134431--42134555 Score: 198
Period size: 61 Copynumber: 2.0 Consensus size: 62
42134421 AAAAATCAAC
* * *
42134431 TTATATTACGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTTTCAATTTCT-GTT
1 TTATATTACAAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGTATTTTCAATTTCTGGTT
* *
42134492 TTATATTGCAAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAATTTCTGGTT
1 TTATATTACAAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGTATTTTCAATTTCTGGTT
42134554 TT
1 TT
42134556 CAATTTCTGT
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
61 53 0.91
62 5 0.09
ACGTcount: A:0.21, C:0.15, G:0.25, T:0.39
Consensus pattern (62 bp):
TTATATTACAAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGTATTTTCAATTTCTGGTT
Found at i:42134557 original size:14 final size:14
Alignment explanation
Indices: 42134538--42134572 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
42134528 CGCTGAGGTA
42134538 TTTTCAATTTCTGG
1 TTTTCAATTTCTGG
*
42134552 TTTTCAATTTCTGT
1 TTTTCAATTTCTGG
42134566 TTTTCAA
1 TTTTCAA
42134573 AAATCGACTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.17, C:0.14, G:0.09, T:0.60
Consensus pattern (14 bp):
TTTTCAATTTCTGG
Found at i:42134677 original size:162 final size:162
Alignment explanation
Indices: 42134494--42134893 Score: 656
Period size: 162 Copynumber: 2.5 Consensus size: 162
42134484 TTTCTGTTTT
42134494 ATATTGCAAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAATTTCTGGTTTTCAA
1 ATATTGCAAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAATTTCTGGTTTTCAA
42134559 TTTCTGTTTTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
66 TTTCTGTTTTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
** * *
42134624 GGTTTTAATTTATGTTCATAAAAAATTAGCTC
131 AATTTCAATTTATGTTCATAAAAAATTAACTC
42134656 ATATTGCAAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAATTTCTGGTTTTCAA
1 ATATTGCAAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAATTTCTGGTTTTCAA
*
42134721 TTTCTGTTTTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGT
66 TTTCTGTTTTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
* ** *
42134786 AATTTCAATTTCTGTTTGTCAAAAATTAACTC
131 AATTTCAATTTATGTTCATAAAAAATTAACTC
* * * * * * *
42134818 ATATTGCGAGAGGTGAGTTGAGTCTCGGCTCACATGCTGAGGTCTTTTTAATTTCTGCTTTTCAA
1 ATATTGCAAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAATTTCTGGTTTTCAA
42134883 TTTCTGTTTTT
66 TTTCTGTTTTT
42134894 TCAATTTATA
Statistics
Matches: 222, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
162 222 1.00
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.37
Consensus pattern (162 bp):
ATATTGCAAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAATTTCTGGTTTTCAA
TTTCTGTTTTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
AATTTCAATTTATGTTCATAAAAAATTAACTC
Found at i:42134719 original size:14 final size:14
Alignment explanation
Indices: 42134700--42134734 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
42134690 CGCTGAGGTA
42134700 TTTTCAATTTCTGG
1 TTTTCAATTTCTGG
*
42134714 TTTTCAATTTCTGT
1 TTTTCAATTTCTGG
42134728 TTTTCAA
1 TTTTCAA
42134735 AAATCGACTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.17, C:0.14, G:0.09, T:0.60
Consensus pattern (14 bp):
TTTTCAATTTCTGG
Found at i:42134832 original size:837 final size:811
Alignment explanation
Indices: 42133083--42134893 Score: 2344
Period size: 837 Copynumber: 2.2 Consensus size: 811
42133073 CCTCAGGACA
42133083 CGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTT
1 CGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTT
* ** ** * *
42133148 C-AAAATTCAACTTATATTGCGAGAAATGAGTTGAGCC-T--CAAGACAGGTTGAGGTATTTTCA
66 CAAAAATT-AACTCATATTGCGAGAGGTGAGTTGAGCCTTGGC-TCACACGCTGAGGTATTTTCA
* * *
42133209 ATTT-TTGTTTTCAA----------AAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC
129 ATTTCTGGTTTTCAATTTCTGTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
*
42133263 GGTTCACATGCTGAGGTATTTTCAATTTCTGTTTTTTAAAAAAAATCAACTCATATTGCGAGAAG
194 GG-T-ACACGCTGAGGTATTTTCAATTTCTGTTTTTTAAAAAAAATCAACTCATATTGCGAGAAG
* * *
42133328 TGAGTTGAGCCTCAAGACGCTGAGGTAATTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGC
257 TGAGTTGAGCCTCAACACGCCGAGGTAATTTCAATTTATGTTTGT--AAAATCAACTCATATTGC
* ** *
42133393 GAGAGGTGAGTTGAGCTTCAGATTACACACTGTGGTATTTTTTTCAATTCATATTGCGAGAGGTG
320 GAGAGGTGAGTTAAGCTT---ATTA-ACACTGTGGTATTTTAATCAACTCATATTGCGAGAGGTG
42133458 AGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTTATATTGCG
381 AGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTTATATTGCG
*
42133523 AGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTTTTCAAAAAAAAAATTA
446 AGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTTTTCAAAAAAAAAATCA
*
42133588 ACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTTTCAATTTCTGTTTT
511 ACTTATATTACGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTTTCAATTTCTG--TT
*
42133653 TAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAACCTCAGGACACGCTGAGGTAATTTCA
574 T--------AT--A-TCATATTGCAAGAAATGAGTTGAACCTCAGGACACGCTGAGGTAATTTCA
*
42133718 ATTTCTGTTTTTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
628 ATTTCTGTTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
42133783 AGGTGGTTTTAATTTATGTTCATAAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCTTGGC
693 AGGTGGTTTTAATTTATGTTCATAAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCTTGGC
42133848 TCACACGCTGAGGTATTTTCAATTTCTGGTTTTCAATTTCTGTTTTTCAAAAAT
758 TCACACGCTGAGGTATTTTCAATTTCTGGTTTTCAATTTCTGTTTTTCAAAAAT
** * * *
42133902 CGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTGGTTTTAATTTATGTTCA
1 CGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTT-T
* * *
42133967 TAAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAA
65 TCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAA
* *
42134032 TTTCTGGTTTTCAATTTCTGTTTTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCA
130 TTTCTGGTTTTCAATTTCTGTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-
* *
42134097 GG-ACACGCTGAGGTATTTTCGATTTTCGTTTTTTTAATTTATGTTTCAAAAAAAATCAACTCAT
194 GGTACACGCTGAGGTATTTTC-AATTTC-------T--GTT-T-TTT-AAAAAAAATCAACTCAT
* * * * **
42134161 ATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCCGAGGTATTTTTAGTTTATGTTT-T-AAATTG
246 ATTGCGAGAAGTGAGTTGAGCCTC--AACACGCCGAGGTAATTTCAATTTATGTTTGTAAAATCA
* * *
42134224 ACTCATATTGCGAGAGGTGAGTTAAGCCTT-TT-A-ATTTTTGT-TTTTCAAAATCAACTCATAT
309 ACTCATATTGCGAGAGGTGAGTTAAG-CTTATTAACACTGTGGTATTTT---AATCAACTCATAT
*
42134285 TGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAA
370 TGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAA
42134350 CTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTTTTCAA
435 CTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTTTTC--
42134415 AAAAAAAAAAATCAACTTATATTACGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTT
498 -AAAAAAAAAATCAACTTATATTACGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTT
** * * *
42134480 TCAATTTCTG-TT-T-T-ATATTGCAAGAGGTGAGTTGAGCCT-TGGCTCACACGCTGAGGTATT
562 TCAATTTCTGTTTATATCATATTGCAAGAAATGAGTTGAACCTCAGG---ACACGCTGAGGTAAT
** *
42134540 TTCAATTTCTGGTTTTCAATTTCTGTTTTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAG
624 TTCAATTTCT-GTTTTCAA----------AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
42134605 CCTCAGGACACGCTGAGGTGGTTTTAATTTATGTTCATAAAAAATTAGCTCATATTGCAAGAGGT
678 CCTCAGGACACGCTGAGGTGGTTTTAATTTATGTTCATAAAAAATTAGCTCATATTGCAAGAGGT
42134670 GAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAATTTCTGGTTTTCAATTTCTGTTTTTCAA
743 GAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAATTTCTGGTTTTCAATTTCTGTTTTTCAA
42134735 AAAT
808 AAAT
*
42134739 CGACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTG
1 CGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTT-
* * * * *
42134804 TCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGCTCACATGCTGAGGTCTTTTTAA
65 TCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAA
*
42134869 TTTCTGCTTTTCAATTTCTGTTTTT
130 TTTCTGGTTTTCAATTTCTGTTTTT
42134894 TCAATTTATA
Statistics
Matches: 871, Mismatches: 67, Indels: 90
0.85 0.07 0.09
Matches are distributed among these distances:
819 59 0.07
820 25 0.03
821 7 0.01
822 21 0.02
823 12 0.01
824 21 0.02
825 1 0.00
826 24 0.03
827 7 0.01
829 1 0.00
831 17 0.02
832 5 0.01
833 36 0.04
834 2 0.00
835 4 0.00
836 5 0.01
837 307 0.35
838 139 0.16
839 3 0.00
841 74 0.08
842 30 0.03
843 6 0.01
844 41 0.05
845 1 0.00
846 23 0.03
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (811 bp):
CGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTT
CAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAAT
TTCTGGTTTTCAATTTCTGTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
TACACGCTGAGGTATTTTCAATTTCTGTTTTTTAAAAAAAATCAACTCATATTGCGAGAAGTGAG
TTGAGCCTCAACACGCCGAGGTAATTTCAATTTATGTTTGTAAAATCAACTCATATTGCGAGAGG
TGAGTTAAGCTTATTAACACTGTGGTATTTTAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
CAGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTTATATTGCGAGAAATGAGT
TGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTTTTCAAAAAAAAAATCAACTTATATTA
CGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTTTCAATTTCTGTTTATATCATATTG
CAAGAAATGAGTTGAACCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAAAAAATC
AACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTGGTTTTAATTTATGTTCAT
AAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAAT
TTCTGGTTTTCAATTTCTGTTTTTCAAAAAT
Found at i:42134884 original size:14 final size:15
Alignment explanation
Indices: 42134859--42134900 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
42134849 ACATGCTGAG
*
42134859 GTCTTTTTAATTTCT
1 GTCTTTTCAATTTCT
42134874 G-CTTTTCAATTTCT
1 GTCTTTTCAATTTCT
*
42134888 GTTTTTTCAATTT
1 GTCTTTTCAATTT
42134901 ATATTTTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.64
Consensus pattern (15 bp):
GTCTTTTCAATTTCT
Found at i:42134896 original size:15 final size:14
Alignment explanation
Indices: 42134862--42134911 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
42134852 TGCTGAGGTC
42134862 TTTTT-AATTTCTG
1 TTTTTCAATTTCTG
*
42134875 CTTTTCAATTTCTG
1 TTTTTCAATTTCTG
* *
42134889 TTTTTTCAATTTATA
1 -TTTTTCAATTTCTG
42134904 TTTTTCAA
1 TTTTTCAA
42134912 AAATCAACTC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
13 4 0.13
14 16 0.52
15 11 0.35
ACGTcount: A:0.20, C:0.12, G:0.04, T:0.64
Consensus pattern (14 bp):
TTTTTCAATTTCTG
Found at i:42136645 original size:21 final size:22
Alignment explanation
Indices: 42136621--42136673 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
42136611 TGTCAAAATT
* *
42136621 AAATAATAAATAATA-CTAGTA
1 AAATAATAAATAATAGCAAATA
42136642 AAATAAT-AATAATAGCAAATA
1 AAATAATAAATAATAGCAAATA
42136663 AAATAA-AAATA
1 AAATAATAAATA
42136674 GCAATGAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 7 0.25
21 21 0.75
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.25
Consensus pattern (22 bp):
AAATAATAAATAATAGCAAATA
Found at i:42136685 original size:18 final size:18
Alignment explanation
Indices: 42136628--42136691 Score: 60
Period size: 18 Copynumber: 3.6 Consensus size: 18
42136618 ATTAAATAAT
* *
42136628 AAATAATACTAGTAAA-A
1 AAATAATAATAGCAAATA
*
42136645 TAATAATAATAGCAAATA
1 AAATAATAATAGCAAATA
*
42136663 AAATAAAAATAGC-AATGA
1 AAATAATAATAGCAAAT-A
*
42136681 GAATAATAATA
1 AAATAATAATA
42136692 CTGATAACAA
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
17 16 0.42
18 22 0.58
ACGTcount: A:0.64, C:0.05, G:0.08, T:0.23
Consensus pattern (18 bp):
AAATAATAATAGCAAATA
Found at i:42139899 original size:27 final size:27
Alignment explanation
Indices: 42139867--42139918 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
42139857 TACTATGGAG
*
42139867 TAAAATTATATTTTAATCTAAAATTGA
1 TAAAATTATAATTTAATCTAAAATTGA
* **
42139894 TAAAATTTTAATTTCGTCTAAAATT
1 TAAAATTATAATTTAATCTAAAATT
42139919 ATTTGATATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (27 bp):
TAAAATTATAATTTAATCTAAAATTGA
Found at i:42140641 original size:14 final size:15
Alignment explanation
Indices: 42140622--42140651 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
42140612 TTTTATAGTT
42140622 TTTTGAAT-TTTTTA
1 TTTTGAATATTTTTA
42140636 TTTTGAATATTTTTA
1 TTTTGAATATTTTTA
42140651 T
1 T
42140652 AAATTTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (15 bp):
TTTTGAATATTTTTA
Found at i:42148239 original size:24 final size:24
Alignment explanation
Indices: 42148210--42148256 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
42148200 GTAAAAGCCG
42148210 ATAGAGTCGCACCTAAAAGGTAAT
1 ATAGAGTCGCACCTAAAAGGTAAT
42148234 ATAGAGTCGCACCTAAAAGGTAA
1 ATAGAGTCGCACCTAAAAGGTAA
42148257 GATAACCTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.43, C:0.17, G:0.21, T:0.19
Consensus pattern (24 bp):
ATAGAGTCGCACCTAAAAGGTAAT
Found at i:42150233 original size:22 final size:22
Alignment explanation
Indices: 42150208--42150251 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
42150198 TAGTCATATA
42150208 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
42150230 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
42150252 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:42150297 original size:16 final size:14
Alignment explanation
Indices: 42150271--42150311 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
42150261 TTTTAATTTT
42150271 ATTTT-AATAATAA
1 ATTTTAAATAATAA
42150284 ATTTTTAAAATAAT-A
1 A-TTTT-AAATAATAA
42150299 ATTTTAAATAATA
1 ATTTTAAATAATA
42150312 TTATTCACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
13 8 0.33
14 8 0.33
15 2 0.08
16 6 0.25
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
ATTTTAAATAATAA
Found at i:42150393 original size:21 final size:22
Alignment explanation
Indices: 42150353--42150393 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
42150343 TAATATTTTA
* *
42150353 ATAATATATATTTATTATAATT
1 ATAATATATATTAATAATAATT
42150375 ATAA-ATATATTAATAATAA
1 ATAATATATATTAATAATAA
42150394 ATGTTTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
ATAATATATATTAATAATAATT
Found at i:42150852 original size:19 final size:21
Alignment explanation
Indices: 42150828--42150878 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
42150818 TATCTAAACA
42150828 CTAAAAAATATTAA-T-TTTT
1 CTAAAAAATATTAATTATTTT
*
42150847 CTAAAAAA-ATAAATTATTTT
1 CTAAAAAATATTAATTATTTT
*
42150867 CTAAAAATTATT
1 CTAAAAAATATT
42150879 TTTCGAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 4 0.15
19 9 0.35
20 11 0.42
21 2 0.08
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (21 bp):
CTAAAAAATATTAATTATTTT
Found at i:42150876 original size:14 final size:14
Alignment explanation
Indices: 42150857--42150894 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
42150847 CTAAAAAAAT
42150857 AAATTA-TTTTCTAA
1 AAATTATTTTTC-AA
*
42150871 AAATTATTTTTCGA
1 AAATTATTTTTCAA
42150885 AAATTATTTT
1 AAATTATTTT
42150895 GAATGAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 17 0.77
15 5 0.23
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.53
Consensus pattern (14 bp):
AAATTATTTTTCAA
Found at i:42164580 original size:65 final size:67
Alignment explanation
Indices: 42164500--42164631 Score: 223
Period size: 67 Copynumber: 2.0 Consensus size: 67
42164490 GTTCGTGTAA
42164500 CTTGAATTATATTCTTAAATGCTTGA-AATGCATGTT-TTTATATGAATATGATTTGAATGTTCA
1 CTTGAATTATATTCTTAAATGCTTGAGAATGCATGTTATTTATATGAATATGATTTGAATGTTCA
42164563 TT
66 TT
* * *
42164565 CTTGAATTATATTCTTAAATGCTTGAGATTGTATGTTATTTATGTGAATATGATTTGAATGTTCA
1 CTTGAATTATATTCTTAAATGCTTGAGAATGCATGTTATTTATATGAATATGATTTGAATGTTCA
42164630 TT
66 TT
42164632 GTATGAAAAT
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
65 26 0.42
66 8 0.13
67 28 0.45
ACGTcount: A:0.30, C:0.07, G:0.15, T:0.48
Consensus pattern (67 bp):
CTTGAATTATATTCTTAAATGCTTGAGAATGCATGTTATTTATATGAATATGATTTGAATGTTCA
TT
Found at i:42165059 original size:46 final size:46
Alignment explanation
Indices: 42165007--42165188 Score: 231
Period size: 46 Copynumber: 4.0 Consensus size: 46
42164997 ACTGTGCTCT
* * *
42165007 CTGATATGAAATGTGTAAGACTATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
42165053 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
42165099 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
42165145 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGACATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
42165189 TCACGTCAAA
Statistics
Matches: 121, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
45 1 0.01
46 120 0.99
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:42165494 original size:23 final size:25
Alignment explanation
Indices: 42165449--42165495 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
42165439 AATAAATATA
*
42165449 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
42165474 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
42165496 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:42170218 original size:69 final size:69
Alignment explanation
Indices: 42170107--42170237 Score: 199
Period size: 69 Copynumber: 1.9 Consensus size: 69
42170097 TCATACGCAG
* * *
42170107 TCAGTGTAGTTAGCAGATATATGGCGAATCCCGGTAAAGAACATTGGAAAGCAGTTCAGTGGTAT
1 TCAGTGCAGTTAGCAGATACATGGCAAATCCCGGTAAAGAACATTGGAAAGCAGTTCAGTGGTAT
42170172 GCAT
66 GCAT
** * *
42170176 TCAGTGCAGTTATTAGATACATGGCAAATCCTGGTAAAGAACATTGGAAAGCAGTTTAGTGG
1 TCAGTGCAGTTAGCAGATACATGGCAAATCCCGGTAAAGAACATTGGAAAGCAGTTCAGTGG
42170238 ATTTTAATAT
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
69 55 1.00
ACGTcount: A:0.33, C:0.14, G:0.27, T:0.27
Consensus pattern (69 bp):
TCAGTGCAGTTAGCAGATACATGGCAAATCCCGGTAAAGAACATTGGAAAGCAGTTCAGTGGTAT
GCAT
Found at i:42175287 original size:21 final size:21
Alignment explanation
Indices: 42175261--42175301 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
42175251 ATCTGCTCAA
* *
42175261 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
42175282 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
42175302 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:42181271 original size:30 final size:30
Alignment explanation
Indices: 42181237--42181296 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
42181227 ATTTAATACG
42181237 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
42181267 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
42181297 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:42184709 original size:26 final size:26
Alignment explanation
Indices: 42184680--42184729 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
42184670 GATTGTCACC
*
42184680 TTGTTTAACTGTCGATAGTCAACATA
1 TTGTTTAACTGCCGATAGTCAACATA
42184706 TTGTTTAACTGCCGATAGTCAACA
1 TTGTTTAACTGCCGATAGTCAACA
42184730 CACAATCTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (26 bp):
TTGTTTAACTGCCGATAGTCAACATA
Found at i:42187432 original size:26 final size:26
Alignment explanation
Indices: 42187403--42187455 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
42187393 CAAAAATTCA
42187403 AATATCTCATAAAATATAATTTATAT
1 AATATCTCATAAAATATAATTTATAT
42187429 AATATCTCATAAAATATAATTTATAT
1 AATATCTCATAAAATATAATTTATAT
42187455 A
1 A
42187456 CCTGTTTTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.42
Consensus pattern (26 bp):
AATATCTCATAAAATATAATTTATAT
Found at i:42191668 original size:32 final size:32
Alignment explanation
Indices: 42191630--42191690 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
42191620 ATTTATACAC
42191630 TTTAGTCCCTAAGTTCAAAACTAACAATTCAT
1 TTTAGTCCCTAAGTTCAAAACTAACAATTCAT
42191662 TTTAGTCCCTAAGTTCAAAACTAACAATT
1 TTTAGTCCCTAAGTTCAAAACTAACAATT
42191691 TTCACTTTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.38, C:0.21, G:0.07, T:0.34
Consensus pattern (32 bp):
TTTAGTCCCTAAGTTCAAAACTAACAATTCAT
Found at i:42194764 original size:42 final size:42
Alignment explanation
Indices: 42194657--42194785 Score: 150
Period size: 42 Copynumber: 3.1 Consensus size: 42
42194647 CGAAGTAATC
** * * * *
42194657 ATACTGACATGTAAGTGCATTATCGAATGTACTGAAGCAAAT
1 ATACTGACACATAAGTGCATCATTGCATATACTGAAGCAAAT
42194699 ATACTGACACATAAGTGCATCATTGCATATACTGAAGCAAAT
1 ATACTGACACATAAGTGCATCATTGCATATACTGAAGCAAAT
* * * * * *
42194741 ATGCTGACACATAAGTGCGTCATTGGATATGCCGAAGCAATT
1 ATACTGACACATAAGTGCATCATTGCATATACTGAAGCAAAT
42194783 ATA
1 ATA
42194786 TTGGTATATA
Statistics
Matches: 74, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 74 1.00
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (42 bp):
ATACTGACACATAAGTGCATCATTGCATATACTGAAGCAAAT
Found at i:42196237 original size:41 final size:41
Alignment explanation
Indices: 42196090--42196249 Score: 178
Period size: 41 Copynumber: 3.9 Consensus size: 41
42196080 GCCTAGCAGG
* * *
42196090 CTGTGTCGGTGTATAATATCAGGCCTATTGCCTAGCAAGCT
1 CTGTGCCGGTGTATAATATCAGGCCTATTGCCTAACAGGCT
* * * *
42196131 TTGTGCCGGTGTAAAATATCAGGCCTATTGCCTATCAGCCT
1 CTGTGCCGGTGTATAATATCAGGCCTATTGCCTAACAGGCT
* * * *
42196172 TTGTGCCGATGTATTATATCAGGCTTATTGCCTAACAGGCT
1 CTGTGCCGGTGTATAATATCAGGCCTATTGCCTAACAGGCT
* * *
42196213 CTGTGCCGGTGTATTATATTAGG-CTTTATGCCTAACA
1 CTGTGCCGGTGTATAATATCAGGCCTAT-TGCCTAACA
42196250 AATTTTATGT
Statistics
Matches: 101, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
40 2 0.02
41 99 0.98
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.34
Consensus pattern (41 bp):
CTGTGCCGGTGTATAATATCAGGCCTATTGCCTAACAGGCT
Found at i:42196245 original size:82 final size:80
Alignment explanation
Indices: 42196072--42196246 Score: 199
Period size: 82 Copynumber: 2.2 Consensus size: 80
42196062 GTGATATTCG
* * * * *
42196072 GGCTTTATGCCTAGCAGGCTGTGTCGGTGTATAATATCAGGCCTATTGCCTAGCAAGCTTTGTGC
1 GGCTTTATGCCTAGCAGCCTGTGCCGATGTATAATATCAGGCCTATTGCCTAACAAGCTCTGTGC
42196137 CGGTGTAAAATATCA
66 CGGTGTAAAATATCA
* * * * *
42196152 GGC-CTATTGCCTATCAGCCTTTGTGCCGATGTATTATATCAGGCTTATTGCCTAACAGGCTCTG
1 GGCTTTA-TGCCTAGCAGCC--TGTGCCGATGTATAATATCAGGCCTATTGCCTAACAAGCTCTG
** *
42196216 TGCCGGTGTATTATATTA
63 TGCCGGTGTAAAATATCA
42196234 GGCTTTATGCCTA
1 GGCTTTATGCCTA
42196247 ACAAATTTTA
Statistics
Matches: 77, Mismatches: 14, Indels: 6
0.79 0.14 0.06
Matches are distributed among these distances:
79 2 0.03
80 13 0.17
82 60 0.78
83 2 0.03
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.34
Consensus pattern (80 bp):
GGCTTTATGCCTAGCAGCCTGTGCCGATGTATAATATCAGGCCTATTGCCTAACAAGCTCTGTGC
CGGTGTAAAATATCA
Found at i:42197786 original size:42 final size:42
Alignment explanation
Indices: 42197739--42197856 Score: 116
Period size: 42 Copynumber: 2.8 Consensus size: 42
42197729 AGATAAACTA
* *
42197739 AAGCAAATATATTGGAACATATA-TGCATCATCGGATATATCG
1 AAGCAAATATACT-GAACATATAGTGCATCATCGGATAAATCG
* * **
42197781 AAGCAATTATACT-AGCATATAAGTGCATCATAAGATAAATCG
1 AAGCAAATATACTGAACATAT-AGTGCATCATCGGATAAATCG
* *
42197823 AAGTAAATATACTAGCACATA-AGTGCATCATCGG
1 AAGCAAATATACT-GAACATATAGTGCATCATCGG
42197857 CTAATCAAAG
Statistics
Matches: 60, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
40 6 0.10
41 1 0.02
42 49 0.82
44 4 0.07
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.26
Consensus pattern (42 bp):
AAGCAAATATACTGAACATATAGTGCATCATCGGATAAATCG
Found at i:42198925 original size:18 final size:18
Alignment explanation
Indices: 42198894--42198944 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
42198884 CAAATAATTT
42198894 TTTTATTAAATAATAATA
1 TTTTATTAAATAATAATA
* *
42198912 TTTTAATAAGTAATAATA
1 TTTTATTAAATAATAATA
*
42198930 TTTTATTAATTAATA
1 TTTTATTAAATAATA
42198945 TTATAATAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
TTTTATTAAATAATAATA
Found at i:42198938 original size:21 final size:20
Alignment explanation
Indices: 42198886--42198944 Score: 61
Period size: 18 Copynumber: 3.0 Consensus size: 20
42198876 ATGACTTTCA
*
42198886 AATAAT-TTTTTTATTAAAT
1 AATAATATTTTTTAATAAAT
*
42198905 AATAATA--TTTTAATAAGT
1 AATAATATTTTTTAATAAAT
*
42198923 AATAATATTTTATTAATTAAT
1 AATAATATTTT-TTAATAAAT
42198944 A
1 A
42198945 TTATAATAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
18 16 0.50
19 6 0.19
20 2 0.06
21 8 0.25
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (20 bp):
AATAATATTTTTTAATAAAT
Found at i:42213068 original size:18 final size:18
Alignment explanation
Indices: 42213027--42213093 Score: 57
Period size: 18 Copynumber: 3.6 Consensus size: 18
42213017 AAGTTTATAA
*
42213027 ATTTTAAATTTTTTTAAT
1 ATTTTTAATTTTTTTAAT
*
42213045 AATTTTAATGTTTTTT-AT
1 ATTTTTAAT-TTTTTTAAT
*
42213063 ATTTTT-ATTTTTACTAATT
1 ATTTTTAATTTTT-TTAA-T
42213082 ATCTTTTAATTT
1 AT-TTTTAATTT
42213094 CATAAAATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
16 4 0.10
17 3 0.08
18 15 0.38
19 9 0.23
20 4 0.10
21 4 0.10
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.67
Consensus pattern (18 bp):
ATTTTTAATTTTTTTAAT
Found at i:42221024 original size:31 final size:31
Alignment explanation
Indices: 42220989--42221050 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
42220979 TGAATCGAGT
*
42220989 TTGTCAGCCATATCTAGATCAGTTCATCATA
1 TTGTCAACCATATCTAGATCAGTTCATCATA
42221020 TTGTCAACCATATCTAGATCAGTTCATCATA
1 TTGTCAACCATATCTAGATCAGTTCATCATA
42221051 GTTTTTATCG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.35
Consensus pattern (31 bp):
TTGTCAACCATATCTAGATCAGTTCATCATA
Found at i:42229355 original size:38 final size:38
Alignment explanation
Indices: 42229312--42229507 Score: 275
Period size: 38 Copynumber: 5.2 Consensus size: 38
42229302 AACACACTAG
42229312 ACAGAAGCTCATAAGAGCTGATCCAACCGAAACACCAA
1 ACAGAAGCTCATAAGAGCTGATCCAACCGAAACACCAA
* ****
42229350 ACAGAAGCTCATAAGAGCTAATCCAACCGATTTTCCAA
1 ACAGAAGCTCATAAGAGCTGATCCAACCGAAACACCAA
* * *
42229388 ATAGAAGCTCATAAGAGCTAATCCAACCAAAACACCAA
1 ACAGAAGCTCATAAGAGCTGATCCAACCGAAACACCAA
* * *
42229426 ACAGAAGCTCATAAGAGTTGATCCAACCGAATCGCCAA
1 ACAGAAGCTCATAAGAGCTGATCCAACCGAAACACCAA
* *
42229464 ACAAAAGCTCATAAGAGCTGATCCAACCGAAACGCCAA
1 ACAGAAGCTCATAAGAGCTGATCCAACCGAAACACCAA
42229502 ACAGAA
1 ACAGAA
42229508 AGTATAACAC
Statistics
Matches: 137, Mismatches: 21, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 137 1.00
ACGTcount: A:0.44, C:0.27, G:0.15, T:0.14
Consensus pattern (38 bp):
ACAGAAGCTCATAAGAGCTGATCCAACCGAAACACCAA
Found at i:42230486 original size:24 final size:23
Alignment explanation
Indices: 42230442--42230486 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
42230432 TTATTTTATT
* **
42230442 TTACTAATTATCTCTTTATTAAA
1 TTACTAATTACCTCTCAATTAAA
42230465 TTACTAATTTACCTCTCAATTA
1 TTACTAA-TTACCTCTCAATTA
42230487 TACATGCATT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 7 0.39
24 11 0.61
ACGTcount: A:0.33, C:0.18, G:0.00, T:0.49
Consensus pattern (23 bp):
TTACTAATTACCTCTCAATTAAA
Found at i:42236112 original size:9 final size:9
Alignment explanation
Indices: 42236070--42236129 Score: 52
Period size: 10 Copynumber: 6.6 Consensus size: 9
42236060 AAAAAAACTT
42236070 ATTTTTATGA
1 ATTTTTAT-A
*
42236080 GTTTTTAGTA
1 ATTTTTA-TA
*
42236090 ATTTTAATA
1 ATTTTTATA
42236099 ATTTTTAT-
1 ATTTTTATA
*
42236107 ATTTTTCTAA
1 ATTTTTAT-A
42236117 ATTTTTA-A
1 ATTTTTATA
42236125 ATTTT
1 ATTTT
42236130 AAAAATTAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
8 13 0.32
9 9 0.22
10 18 0.44
11 1 0.02
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (9 bp):
ATTTTTATA
Found at i:42236135 original size:17 final size:18
Alignment explanation
Indices: 42236081--42236136 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
42236071 TTTTTATGAG
*
42236081 TTTTTAGTAATTTTAATAA
1 TTTTTA-TAATTTTAAAAA
* **
42236100 TTTTTATATTTTTCTAAA
1 TTTTTATAATTTTAAAAA
42236118 TTTTTA-AATTTTAAAAA
1 TTTTTATAATTTTAAAAA
42236135 TT
1 TT
42236137 AATTAACTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 10 0.33
18 14 0.47
19 6 0.20
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (18 bp):
TTTTTATAATTTTAAAAA
Found at i:42239318 original size:26 final size:26
Alignment explanation
Indices: 42239282--42239365 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
42239272 TGATACAAAT
*
42239282 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
42239308 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
42239334 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
42239360 TGATAA
1 TGATAA
42239366 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:42241740 original size:19 final size:19
Alignment explanation
Indices: 42241697--42241736 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
42241687 TACAAAAATG
*
42241697 AAATTCAAAATAATTTCTA
1 AAATTCAAAATAATTTATA
42241716 AAATTCAAAAT-ATTTATA
1 AAATTCAAAATAATTTATA
42241734 AAA
1 AAA
42241737 ATTCCAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.35
Consensus pattern (19 bp):
AAATTCAAAATAATTTATA
Found at i:42242276 original size:74 final size:74
Alignment explanation
Indices: 42242162--42242309 Score: 296
Period size: 74 Copynumber: 2.0 Consensus size: 74
42242152 ATCGAACTCT
42242162 CACCCCTAACTAGGTTGTTAAGTTTTTTTTTTTAAGTTCAACTAGCAAGCTCCAAGCGACAATTC
1 CACCCCTAACTAGGTTGTTAAGTTTTTTTTTTTAAGTTCAACTAGCAAGCTCCAAGCGACAATTC
42242227 AACGATCGG
66 AACGATCGG
42242236 CACCCCTAACTAGGTTGTTAAGTTTTTTTTTTTAAGTTCAACTAGCAAGCTCCAAGCGACAATTC
1 CACCCCTAACTAGGTTGTTAAGTTTTTTTTTTTAAGTTCAACTAGCAAGCTCCAAGCGACAATTC
42242301 AACGATCGG
66 AACGATCGG
42242310 TACAGTGGAC
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.32
Consensus pattern (74 bp):
CACCCCTAACTAGGTTGTTAAGTTTTTTTTTTTAAGTTCAACTAGCAAGCTCCAAGCGACAATTC
AACGATCGG
Found at i:42245713 original size:23 final size:23
Alignment explanation
Indices: 42245679--42245734 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
42245669 TGATACAAGG
* *
42245679 TTTTAATA-TTTTAAATTAATTT
1 TTTTTATATTTTTAAATTAATTA
**
42245701 TTTTTATATTTTTATCTTAATTA
1 TTTTTATATTTTTAAATTAATTA
42245724 TTTTTAT-TTTT
1 TTTTTATATTTT
42245735 ATTTATAATC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 11 0.38
23 18 0.62
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (23 bp):
TTTTTATATTTTTAAATTAATTA
Found at i:42246195 original size:30 final size:30
Alignment explanation
Indices: 42246138--42246195 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
42246128 AATAGAAAAG
* * *
42246138 AACAAAAGAAAATTATTGCTTATAAATGTC
1 AACAAAAGAAAATAATGGCTTAAAAATGTC
42246168 AACAAAAGAAAATCAATGGC-TAAAAATG
1 AACAAAAGAAAAT-AATGGCTTAAAAATG
42246196 GAGTTAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.55, C:0.10, G:0.12, T:0.22
Consensus pattern (30 bp):
AACAAAAGAAAATAATGGCTTAAAAATGTC
Found at i:42257463 original size:18 final size:18
Alignment explanation
Indices: 42257425--42257464 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
42257415 TATATTATTA
*
42257425 TTATTATTAGTATATGTT
1 TTATTATTAGTATATGAT
42257443 TTATTATTATGTATAT-AT
1 TTATTATTA-GTATATGAT
42257461 TTAT
1 TTAT
42257465 GTAGTATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.62
Consensus pattern (18 bp):
TTATTATTAGTATATGAT
Found at i:42257476 original size:46 final size:45
Alignment explanation
Indices: 42257423--42257512 Score: 121
Period size: 46 Copynumber: 2.0 Consensus size: 45
42257413 TTTATATTAT
*
42257423 TATTATTATTAGTATATGTTTTA-TTAT-TATGTATATATTTATGTAG
1 TATTATTATTAGT-CAT-TTTTATTTATATATGTATATA-TTATGTAG
*
42257469 TATTATTATTAGTCATTTTTATTTCTATATGTATATATTATGTA
1 TATTATTATTAGTCATTTTTATTTATATATGTATATATTATGTA
42257513 AATATTTTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
44 5 0.12
45 12 0.30
46 23 0.57
ACGTcount: A:0.30, C:0.02, G:0.09, T:0.59
Consensus pattern (45 bp):
TATTATTATTAGTCATTTTTATTTATATATGTATATATTATGTAG
Found at i:42257481 original size:12 final size:12
Alignment explanation
Indices: 42257417--42257491 Score: 53
Period size: 13 Copynumber: 5.8 Consensus size: 12
42257407 CCATTATTTA
*
42257417 TATTATTATTAT
1 TATTATTATTAG
*
42257429 TATTAGTA-TATG
1 TATTATTATTA-G
*
42257441 TTTTATTATTATG
1 TATTATTATTA-G
42257454 TATATATTTATGTAG
1 TAT-TA-TTAT-TAG
42257469 TATTATTATTAG
1 TATTATTATTAG
*
42257481 TCATTTTTATT
1 T-ATTATTATT
42257492 TCTATATGTA
Statistics
Matches: 51, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
11 2 0.04
12 17 0.33
13 18 0.35
14 4 0.08
15 8 0.16
16 2 0.04
ACGTcount: A:0.29, C:0.01, G:0.08, T:0.61
Consensus pattern (12 bp):
TATTATTATTAG
Found at i:42257626 original size:22 final size:24
Alignment explanation
Indices: 42257585--42257637 Score: 69
Period size: 22 Copynumber: 2.3 Consensus size: 24
42257575 TAATATTAAT
42257585 TTAT-TATTATTATATATTATTACG
1 TTATATATTATTATATATTATTA-G
42257609 -TATATATT-TTA-ATATTATTAG
1 TTATATATTATTATATATTATTAG
42257630 TTATATAT
1 TTATATAT
42257638 CTTTTATACT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
21 1 0.04
22 16 0.59
23 6 0.22
24 4 0.15
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (24 bp):
TTATATATTATTATATATTATTAG
Found at i:42257789 original size:22 final size:22
Alignment explanation
Indices: 42257764--42257829 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 22
42257754 ATCATTTCTA
42257764 ATATATATATTGTATATGTTTT
1 ATATATATATTGTATATGTTTT
*
42257786 ATATATAT-TATGTATATATTTT
1 ATATATATAT-TGTATATGTTTT
42257808 -TA-ATATTATTAGTTATATGTTT
1 ATATATA-TATT-G-TATATGTTT
42257830 CTTATACTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
20 3 0.08
21 5 0.14
22 21 0.57
23 8 0.22
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (22 bp):
ATATATATATTGTATATGTTTT
Found at i:42257840 original size:23 final size:23
Alignment explanation
Indices: 42257776--42257877 Score: 68
Period size: 23 Copynumber: 4.2 Consensus size: 23
42257766 ATATATATTG
42257776 TATATGTTTTATATATATTATGTA
1 TATATGTTTT-TATATATTATGTA
*
42257800 TATAT-TTTTAATATTATTA-GT-
1 TATATGTTTTTATA-TATTATGTA
*
42257821 TATATGTTTCTTATACTATTCCAGGTA
1 TATATGTTT-TTATA-TATT--ATGTA
*
42257848 CATAT-TTTTTATATCATCTTATGTA
1 TATATGTTTTTATAT-A--TTATGTA
42257873 TATAT
1 TATAT
42257878 TCTTAAATAC
Statistics
Matches: 62, Mismatches: 6, Indels: 19
0.71 0.07 0.22
Matches are distributed among these distances:
21 5 0.08
22 8 0.13
23 17 0.27
24 6 0.10
25 15 0.24
26 5 0.08
27 6 0.10
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.56
Consensus pattern (23 bp):
TATATGTTTTTATATATTATGTA
Found at i:42258725 original size:130 final size:128
Alignment explanation
Indices: 42258426--42259189 Score: 475
Period size: 133 Copynumber: 5.8 Consensus size: 128
42258416 TTCGAAAGAG
* * ** * * *
42258426 ATATTCGATTATTTTGAACAAACGAGAGATTGCAACCCAACACGATAGGGCACTATTCCACGAAT
1 ATATTCGATTGTTTTGAACAAACGAGAAATCACAACCCAGCACGATAGGGCTCGATTCC-CGAAT
*** * * *
42258491 TGCCAAACATCGAACATTTTTTTCTGTTTT-AAAGAGTTTTTAGA-AAACGTGAGTGAAATTCC-
65 TGCCAAACATCG-A-ATTCGCTTC-GTTTTGAAA-A-ATTTTA-ATAAACATGAGTGAAA-ACCT
* *
42258553 GAAGGG
123 AAAGGA
* * ** * * * * ** *
42258559 ATCTTCAATCATTTTGAACAAATGAAAAAGCGCAACCCAGCACGATAGGGCTCGATTTTCAAATT
1 ATATTCGATTGTTTTGAACAAACGAGAAATCACAACCCAGCACGATAGGGCTCGATTCCCGAATT
42258624 GCCAAACATCGAATGTCGCATTCGTTTTGAAAAATTTTAATAAACATGAGTGAAAACCTAAAGGA
66 GCCAAACATCGAAT-TCGC-TTCGTTTTGAAAAATTTTAATAAACATGAGTGAAAACCTAAAGGA
42258689 ATATTCGATTGTTTTGAACAAACGAGAAATCACAACCCAGCACGATAGGGCAT-GATTCCCGAAT
1 ATATTCGATTGTTTTGAACAAACGAGAAATCACAACCCAGCACGATAGGGC-TCGATTCCCGAAT
** * * * * * * * *** *
42258753 TATCAAACACCGATTATCGCCTTTGTTTT-AAAAGATTTTTTTAGAAGATATGAATGAAATTTTG
65 TGCCAAACATCGAAT-TCG-CTTCGTTTTGAAAA-A--TTTTAATAA-ACATGAGTGAAAACCTA
*
42258817 AAGGG
124 AAGGA
* * * ** * * **
42258822 ATACTCGATTATTTTGAGCAAACGCA-AAATTGCAACCCAACACGTTAGGGAACGATTCCGCGAA
1 ATATTCGATTGTTTTGAACAAACG-AGAAATCACAACCCAGCACGATAGGGCTCGATTCC-CGAA
* * *
42258886 TTGCTAAATATCAAACTTCGTCTTCGTTTTGAAAAATTTTAATAAACATGAGTGAAAACCTAAAG
64 TTGCCAAACATCGAA-TTCG-CTTCGTTTTGAAAAATTTTAATAAACATGAGTGAAAACCTAAAG
42258951 GA
127 GA
42258953 ATATTCGATTGTTTTGAACAAACGAGAAATCACAACCCAGCACGATAGGGCAT-GATTCCCGAAT
1 ATATTCGATTGTTTTGAACAAACGAGAAATCACAACCCAGCACGATAGGGC-TCGATTCCCGAAT
** * * * * * * * *** *
42259017 TATCAAACACCGATTATCGCCTTTGTTTT-AAAAGATTTTTTTAGAAGATATGAATGAAATTTTG
65 TGCCAAACATCGAAT-TCG-CTTCGTTTTGAAAA-A--TTTTAATAA-ACATGAGTGAAAACCTA
*
42259081 AAGGG
124 AAGGA
* * * ** * * **
42259086 ATACTCGATTATTTTGAGCAAACGCA-AAATTGCAACCCAACACGTTAGGGAACGATTCCGCGAA
1 ATATTCGATTGTTTTGAACAAACG-AGAAATCACAACCCAGCACGATAGGGCTCGATTCC-CGAA
* * *
42259150 TTGCTAAATATCAAACTTCGTCTTCGTTTTGAAAAATTTT
64 TTGCCAAACATCGAA-TTCG-CTTCGTTTTGAAAAATTTT
42259190 TGAATGAATA
Statistics
Matches: 483, Mismatches: 120, Indels: 57
0.73 0.18 0.09
Matches are distributed among these distances:
129 12 0.02
130 122 0.25
131 72 0.15
132 47 0.10
133 170 0.35
134 50 0.10
135 10 0.02
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (128 bp):
ATATTCGATTGTTTTGAACAAACGAGAAATCACAACCCAGCACGATAGGGCTCGATTCCCGAATT
GCCAAACATCGAATTCGCTTCGTTTTGAAAAATTTTAATAAACATGAGTGAAAACCTAAAGGA
Found at i:42258860 original size:133 final size:134
Alignment explanation
Indices: 42258684--42259151 Score: 506
Period size: 133 Copynumber: 3.5 Consensus size: 134
42258674 TGAAAACCTA
* * * * *
42258684 AAGGAATATTCGATTGTTTTGAACAAACGAGAAATCACAACCCAGCACGATAGGGCATGATTCC-
1 AAGGAATACTCGATTATTTTGAACAAACGAGAAATCACAACCCAACACGATAGGGAACGATTCCG
42258748 CGAATTATCAAACACCGATTATCGCCTTTGTTTTAAAAGATTTTTTTAGAAGATATGAATGAAAT
66 CGAATTATCAAACACCGATTATCGCCTTTGTTTTAAAAGATTTTTTTAGAAGATATGAATGAAAT
42258813 TTTG
131 TTTG
* * ** *
42258817 AAGGGATACTCGATTATTTTGAGCAAACGCA-AAATTGCAACCCAACACGTTAGGGAACGATTCC
1 AAGGAATACTCGATTATTTTGAACAAACG-AGAAATCACAACCCAACACGATAGGGAACGATTCC
* * ** * * * * * * *
42258881 GCGAATT-GCTAAATATCAAACT-TCGTCTTCGTTTTGAAAA-A--TTTTAATAA-ACATGAGTG
65 GCGAATTATC-AAACA-CCGATTATCGCCTTTGTTTT-AAAAGATTTTTTTAGAAGATATGAATG
*** *
42258940 AAAACCTA
127 AAATTTTG
* * * * *
42258948 AAGGAATATTCGATTGTTTTGAACAAACGAGAAATCACAACCCAGCACGATAGGGCATGATTCC-
1 AAGGAATACTCGATTATTTTGAACAAACGAGAAATCACAACCCAACACGATAGGGAACGATTCCG
42259012 CGAATTATCAAACACCGATTATCGCCTTTGTTTTAAAAGATTTTTTTAGAAGATATGAATGAAAT
66 CGAATTATCAAACACCGATTATCGCCTTTGTTTTAAAAGATTTTTTTAGAAGATATGAATGAAAT
42259077 TTTG
131 TTTG
* * ** *
42259081 AAGGGATACTCGATTATTTTGAGCAAACGCA-AAATTGCAACCCAACACGTTAGGGAACGATTCC
1 AAGGAATACTCGATTATTTTGAACAAACG-AGAAATCACAACCCAACACGATAGGGAACGATTCC
42259145 GCGAATT
65 GCGAATT
42259152 GCTAAATATC
Statistics
Matches: 261, Mismatches: 60, Indels: 27
0.75 0.17 0.08
Matches are distributed among these distances:
129 7 0.03
130 23 0.09
131 64 0.25
132 14 0.05
133 116 0.44
134 30 0.11
135 7 0.03
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (134 bp):
AAGGAATACTCGATTATTTTGAACAAACGAGAAATCACAACCCAACACGATAGGGAACGATTCCG
CGAATTATCAAACACCGATTATCGCCTTTGTTTTAAAAGATTTTTTTAGAAGATATGAATGAAAT
TTTG
Found at i:42258978 original size:264 final size:264
Alignment explanation
Indices: 42258644--42259189 Score: 1092
Period size: 264 Copynumber: 2.1 Consensus size: 264
42258634 GAATGTCGCA
42258644 TTCGTTTTGAAAAATTTTAATAAACATGAGTGAAAACCTAAAGGAATATTCGATTGTTTTGAACA
1 TTCGTTTTGAAAAATTTTAATAAACATGAGTGAAAACCTAAAGGAATATTCGATTGTTTTGAACA
42258709 AACGAGAAATCACAACCCAGCACGATAGGGCATGATTCCCGAATTATCAAACACCGATTATCGCC
66 AACGAGAAATCACAACCCAGCACGATAGGGCATGATTCCCGAATTATCAAACACCGATTATCGCC
42258774 TTTGTTTTAAAAGATTTTTTTAGAAGATATGAATGAAATTTTGAAGGGATACTCGATTATTTTGA
131 TTTGTTTTAAAAGATTTTTTTAGAAGATATGAATGAAATTTTGAAGGGATACTCGATTATTTTGA
42258839 GCAAACGCAAAATTGCAACCCAACACGTTAGGGAACGATTCCGCGAATTGCTAAATATCAAACTT
196 GCAAACGCAAAATTGCAACCCAACACGTTAGGGAACGATTCCGCGAATTGCTAAATATCAAACTT
42258904 CGTC
261 CGTC
42258908 TTCGTTTTGAAAAATTTTAATAAACATGAGTGAAAACCTAAAGGAATATTCGATTGTTTTGAACA
1 TTCGTTTTGAAAAATTTTAATAAACATGAGTGAAAACCTAAAGGAATATTCGATTGTTTTGAACA
42258973 AACGAGAAATCACAACCCAGCACGATAGGGCATGATTCCCGAATTATCAAACACCGATTATCGCC
66 AACGAGAAATCACAACCCAGCACGATAGGGCATGATTCCCGAATTATCAAACACCGATTATCGCC
42259038 TTTGTTTTAAAAGATTTTTTTAGAAGATATGAATGAAATTTTGAAGGGATACTCGATTATTTTGA
131 TTTGTTTTAAAAGATTTTTTTAGAAGATATGAATGAAATTTTGAAGGGATACTCGATTATTTTGA
42259103 GCAAACGCAAAATTGCAACCCAACACGTTAGGGAACGATTCCGCGAATTGCTAAATATCAAACTT
196 GCAAACGCAAAATTGCAACCCAACACGTTAGGGAACGATTCCGCGAATTGCTAAATATCAAACTT
42259168 CGTC
261 CGTC
42259172 TTCGTTTTGAAAAATTTT
1 TTCGTTTTGAAAAATTTT
42259190 TGAATGAATA
Statistics
Matches: 282, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
264 282 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (264 bp):
TTCGTTTTGAAAAATTTTAATAAACATGAGTGAAAACCTAAAGGAATATTCGATTGTTTTGAACA
AACGAGAAATCACAACCCAGCACGATAGGGCATGATTCCCGAATTATCAAACACCGATTATCGCC
TTTGTTTTAAAAGATTTTTTTAGAAGATATGAATGAAATTTTGAAGGGATACTCGATTATTTTGA
GCAAACGCAAAATTGCAACCCAACACGTTAGGGAACGATTCCGCGAATTGCTAAATATCAAACTT
CGTC
Found at i:42261793 original size:44 final size:44
Alignment explanation
Indices: 42261745--42262517 Score: 811
Period size: 44 Copynumber: 17.2 Consensus size: 44
42261735 CTCAGGAACA
*
42261745 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCACTACAGAGACG
** *
42261789 CCAAATCTGCTATCTTCGATCTGCTCTCTACCAATACAGAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCACTACAGAGACG
* * *
42261833 CCCAATCTGCTATCTTCGATCTGCTCTCTGCCACTACAGAGATG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCACTACAGAGACG
* *
42261877 CCAAATCTGTTATCTTCGATCTGCTCTTCGCCACTACAGAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCACTACAGAGACG
* *
42261921 CCAAATCTGCTATCTTCGATCTGCTCTCTGCCACTACAGAGATG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCACTACAGAGACG
* *
42261965 CCAAATCTGTTATCTTCGATCTGCTCTTCGCCACTACAGAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCACTACAGAGACG
* *
42262009 CCAAATCTGCTATCTTCGATATGCTCTCCGCCACTACAGAGATG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCACTACAGAGACG
* * *
42262053 CCAAATCTGCTATATTCGATCTGCTCTCCACCAATACAGAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCACTACAGAGACG
* *
42262097 CCAAATCTGCTATCTTCGATCTGCTCTCCGTCAAC-ACAGAGATG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCG-CCACTACAGAGACG
* * *
42262141 CCAAATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGAAG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCACTACAGAGACG
* * *
42262185 CCAAATCTGTTA-CTTTCGATCTGCTCTCTGCCAATACAGAGACG
1 CCAAATCTGCTATC-TTCGATCTGCTCTCCGCCACTACAGAGACG
* * * *
42262229 CCAAATCTGCTATCTTTGATCTACTCTCCGCCAATACAGAGATG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCACTACAGAGACG
* * ** * * * * * ** *
42262273 CCAAATCT-ATAAAGACGCCAAATCTGATATCTTCGATCTGCTCT-CCGCCACT
1 CCAAATCTGCT--A-TCTTC-GATCTG--CTCTCCG--C--CACTACAGAGACG
* * * *
42262325 ACAGAGATGCCAAAT-CTGTTGTCTTCGATCTGCTTTCCGCCACTACAGAGATG
1 CCA-A-AT--C---TGC---TATCTTCGATCTGCTCTCCGCCACTACAGAGACG
* * *
42262378 CCAAATCTGTTATCTTCGATCTTCTCTCCGCCACTACAGAGATG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCACTACAGAGACG
* * *
42262422 CCAAATCTGCTATATTCGATCTGCTCTCCGCTAATACAGAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCACTACAGAGACG
* * *
42262466 CCAAATCTGCTATCTTCGATTTGCTCTCCACTACTACA-AGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCACTACAGAGACG
42262509 CCAAATCTG
1 CCAAATCTG
42262518 TCTGTTCTTG
Statistics
Matches: 612, Mismatches: 91, Indels: 53
0.81 0.12 0.07
Matches are distributed among these distances:
43 18 0.03
44 541 0.88
45 4 0.01
46 2 0.00
47 4 0.01
49 6 0.01
51 3 0.00
52 9 0.01
53 8 0.01
54 3 0.00
56 5 0.01
58 5 0.01
59 3 0.00
62 1 0.00
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.28
Consensus pattern (44 bp):
CCAAATCTGCTATCTTCGATCTGCTCTCCGCCACTACAGAGACG
Found at i:42261946 original size:132 final size:132
Alignment explanation
Indices: 42261745--42262517 Score: 985
Period size: 132 Copynumber: 5.7 Consensus size: 132
42261735 CTCAGGAACA
42261745 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTGCTATCTTCGATC
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTGCTATCTTCGATC
* * *
42261810 TGCTCTCTACCAATACAGAGACGCCCAATCTGCTATCTTCGATCTGCTCTCTGCCACTACAGAGA
66 TGCTCTCCACCAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCACTACAGAGA
42261875 TG
131 TG
* * *
42261877 CCAAATCTGTTATCTTCGATCTGCTCTTCGCCACTACAGAGACGCCAAATCTGCTATCTTCGATC
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTGCTATCTTCGATC
** * * * *
42261942 TGCTCTCTGCCACTACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTTCGCCACTACAGAGA
66 TGCTCTCCACCAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCACTACAGAGA
*
42262007 CG
131 TG
* * * *
42262009 CCAAATCTGCTATCTTCGATATGCTCTCCGCCACTACAGAGATGCCAAATCTGCTATATTCGATC
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTGCTATCTTCGATC
*
42262074 TGCTCTCCACCAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCCGTCAAC-ACAGAG
66 TGCTCTCCACCAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCCG-CCACTACAGAG
42262138 ATG
130 ATG
* * *
42262141 CCAAATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGAAGCCAAATCTGTTA-CTTTCGAT
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTGCTATC-TTCGAT
** * * *
42262205 CTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTTTGATCTACTCTCCGCCAATACAGAG
65 CTGCTCTCCACCAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCACTACAGAG
42262270 ATG
130 ATG
* *
42262273 CCAAATCTATAAAGACGCCAAATCTGATATCTTCGATCTGCTCTCCGCCACTACAGAGATGCCAA
1 CCAAATC--T------G------C---TATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCAA
* * * * * * * *
42262338 ATCTGTTGTCTTCGATCTGCTTTCCGCCACTACAGAGATGCCAAATCTGTTATCTTCGATCTTCT
49 ATCTGCTATCTTCGATCTGCTCTCCACCAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCT
42262403 CTCCGCCACTACAGAGATG
114 CTCCGCCACTACAGAGATG
* * *
42262422 CCAAATCTGCTATATTCGATCTGCTCTCCGCTAATACAGAGACGCCAAATCTGCTATCTTCGATT
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTGCTATCTTCGATC
* *
42262487 TGCTCTCCACTACTACA-AGACGCCAAATCTG
66 TGCTCTCCACCAATACAGAGACGCCAAATCTG
42262518 TCTGTTCTTG
Statistics
Matches: 561, Mismatches: 59, Indels: 43
0.85 0.09 0.06
Matches are distributed among these distances:
131 15 0.03
132 421 0.75
133 3 0.01
134 1 0.00
135 1 0.00
140 1 0.00
141 1 0.00
146 1 0.00
147 1 0.00
149 115 0.20
150 1 0.00
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.28
Consensus pattern (132 bp):
CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTGCTATCTTCGATC
TGCTCTCCACCAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCACTACAGAGA
TG
Found at i:42262319 original size:61 final size:61
Alignment explanation
Indices: 42262224--42262341 Score: 200
Period size: 61 Copynumber: 1.9 Consensus size: 61
42262214 GCCAATACAG
* *
42262224 AGACGCCAAATCTGCTATCTTTGATCTACTCTCCGCCAATACAGAGATGCCAAATCTATAA
1 AGACGCCAAATCTGATATCTTCGATCTACTCTCCGCCAATACAGAGATGCCAAATCTATAA
* *
42262285 AGACGCCAAATCTGATATCTTCGATCTGCTCTCCGCCACTACAGAGATGCCAAATCT
1 AGACGCCAAATCTGATATCTTCGATCTACTCTCCGCCAATACAGAGATGCCAAATCT
42262342 GTTGTCTTCG
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 53 1.00
ACGTcount: A:0.31, C:0.30, G:0.14, T:0.25
Consensus pattern (61 bp):
AGACGCCAAATCTGATATCTTCGATCTACTCTCCGCCAATACAGAGATGCCAAATCTATAA
Found at i:42262366 original size:105 final size:105
Alignment explanation
Indices: 42262184--42262385 Score: 298
Period size: 105 Copynumber: 1.9 Consensus size: 105
42262174 ATACAGAGAA
* * *
42262184 GCCAAATCTGTTACTTTCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTTTGAT
1 GCCAAATCTGATACTTTCGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTGCTATCTTCGAT
42262249 CTACTCTCCGCCAATACAGAGATGCCAAATCTATAAAGAC
66 CTACTCTCCGCCAATACAGAGATGCCAAATCTATAAAGAC
* * * *
42262289 GCCAAATCTGATA-TCTTCGATCTGCTCTCCGCCACTACAGAGATGCCAAATCTGTTGTCTTCGA
1 GCCAAATCTGATACT-TTCGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTGCTATCTTCGA
* * *
42262353 TCTGCTTTCCGCCACTACAGAGATGCCAAATCT
65 TCTACTCTCCGCCAATACAGAGATGCCAAATCT
42262386 GTTATCTTCG
Statistics
Matches: 86, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
104 1 0.01
105 85 0.99
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.28
Consensus pattern (105 bp):
GCCAAATCTGATACTTTCGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTGCTATCTTCGAT
CTACTCTCCGCCAATACAGAGATGCCAAATCTATAAAGAC
Found at i:42262410 original size:149 final size:149
Alignment explanation
Indices: 42262140--42262429 Score: 447
Period size: 149 Copynumber: 1.9 Consensus size: 149
42262130 ACACAGAGAT
* *
42262140 GCCAAATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGAAGCCAAATCTGTTACTTTCGAT
1 GCCAAATCTGATATCTTCGATCTGCTCTCCGCCAATACAGAGAAGCCAAATCTGTTACTTTCGAT
* *
42262205 CTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTTTGATCTACTCTCCGCCAATACAGAG
66 CTGCTCTCCGCCAATACAGAGACGCCAAATCTGCTATCTTCGATCTACTCTCCGCCAATACAGAG
42262270 ATGCCAAATCTATAAAGAC
131 ATGCCAAATCTATAAAGAC
* * *
42262289 GCCAAATCTGATATCTTCGATCTGCTCTCCGCCACTACAGAGATGCCAAATCTGTT-GTCTTCGA
1 GCCAAATCTGATATCTTCGATCTGCTCTCCGCCAATACAGAGAAGCCAAATCTGTTACT-TTCGA
* * * * * *
42262353 TCTGCTTTCCGCCACTACAGAGATGCCAAATCTGTTATCTTCGATCTTCTCTCCGCCACTACAGA
65 TCTGCTCTCCGCCAATACAGAGACGCCAAATCTGCTATCTTCGATCTACTCTCCGCCAATACAGA
42262418 GATGCCAAATCT
130 GATGCCAAATCT
42262430 GCTATATTCG
Statistics
Matches: 127, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
148 1 0.01
149 126 0.99
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.29
Consensus pattern (149 bp):
GCCAAATCTGATATCTTCGATCTGCTCTCCGCCAATACAGAGAAGCCAAATCTGTTACTTTCGAT
CTGCTCTCCGCCAATACAGAGACGCCAAATCTGCTATCTTCGATCTACTCTCCGCCAATACAGAG
ATGCCAAATCTATAAAGAC
Found at i:42262427 original size:193 final size:193
Alignment explanation
Indices: 42262092--42262473 Score: 579
Period size: 193 Copynumber: 2.0 Consensus size: 193
42262082 ACCAATACAG
*
42262092 AGACGCCAAATCTGCTATCTTCGATCTGCTCTCCGTCAACACAGAGATGCCAAATCTGCTATCTT
1 AGACGCCAAATCTGATATCTTCGATCTGCTCTCCGTCAACACAGAGATGCCAAATCTGCTATCTT
* *
42262157 CGATCTGCTCTCTGCCAATACAGAGAAGCCAAATCTGTTACTTTCGATCTGCTCTCTGCCAATAC
66 CGATCTGCTCTCCGCCAATACAGAGAAGCCAAATCTGTTACTTTCGATCTGCTCTCCGCCAATAC
* * *
42262222 AGAGACGCCAAATCTGCTATCTTTGATCTACTCTCCGCCAATACAGAGATGCCAAATCTATAA
131 AGAGACGCCAAATCTGCTATATTCGATCTACTCTCCGCCAATACAGAGACGCCAAATCTATAA
* * *
42262285 AGACGCCAAATCTGATATCTTCGATCTGCTCTCCG-CCACTACAGAGATGCCAAATCTGTTGTCT
1 AGACGCCAAATCTGATATCTTCGATCTGCTCTCCGTCAAC-ACAGAGATGCCAAATCTGCTATCT
* * * * *
42262349 TCGATCTGCTTTCCGCCACTACAGAGATGCCAAATCTGTTA-TCTTCGATCTTCTCTCCGCCACT
65 TCGATCTGCTCTCCGCCAATACAGAGAAGCCAAATCTGTTACT-TTCGATCTGCTCTCCGCCAAT
* * *
42262413 ACAGAGATGCCAAATCTGCTATATTCGATCTGCTCTCCGCTAATACAGAGACGCCAAATCT
129 ACAGAGACGCCAAATCTGCTATATTCGATCTACTCTCCGCCAATACAGAGACGCCAAATCT
42262474 GCTATCTTCG
Statistics
Matches: 170, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
192 4 0.02
193 166 0.98
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.28
Consensus pattern (193 bp):
AGACGCCAAATCTGATATCTTCGATCTGCTCTCCGTCAACACAGAGATGCCAAATCTGCTATCTT
CGATCTGCTCTCCGCCAATACAGAGAAGCCAAATCTGTTACTTTCGATCTGCTCTCCGCCAATAC
AGAGACGCCAAATCTGCTATATTCGATCTACTCTCCGCCAATACAGAGACGCCAAATCTATAA
Found at i:42262467 original size:237 final size:236
Alignment explanation
Indices: 42262052--42262516 Score: 673
Period size: 237 Copynumber: 2.0 Consensus size: 236
42262042 CTACAGAGAT
*
42262052 GCCAAATCTGCTATATTCGATCTGCTCTCCACCAATACAGAGACGCCAAATCTGCTATCTTCGAT
1 GCCAAATCTGATATATTCGATCTGCTCTCCACCAATACAGAGACGCCAAATCTGCTATCTTCGAT
*
42262117 CTGCTCTCCGTCAACACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAG
66 CTGCTCTCCGTCAACACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAG
* * *
42262182 AAGCCAAATCTGTTACTTTCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTTTG
131 AAGCCAAATCTGCTACTTTCGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTGCTATCTTCG
* *
42262247 ATCTACTCTCCGCCAATACAGAGATGCCAAATCTATAAAGAC
196 ATCTACTCTCCACCAATACA-AGACGCCAAATCTATAAAGAC
* * * * * *
42262289 GCCAAATCTGATATCTTCGATCTGCTCTCCGCCACTACAGAGATGCCAAATCTGTTGTCTTCGAT
1 GCCAAATCTGATATATTCGATCTGCTCTCCACCAATACAGAGACGCCAAATCTGCTATCTTCGAT
* * * * *
42262354 CTGCTTTCCG-CCACTACAGAGATGCCAAATCTGTTATCTTCGATCTTCTCTCCGCCACTACAGA
66 CTGCTCTCCGTCAAC-ACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGA
* *
42262418 GATGCCAAATCTGCTA-TATTCGATCTGCTCTCCGCTAATACAGAGACGCCAAATCTGCTATCTT
130 GAAGCCAAATCTGCTACT-TTCGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTGCTATCTT
* * * *
42262482 CGATTTGCTCTCCACTACTACAAGACGCCAAATCT
194 CGATCTACTCTCCACCAATACAAGACGCCAAATCT
42262517 GTCTGTTCTT
Statistics
Matches: 202, Mismatches: 24, Indels: 5
0.87 0.10 0.02
Matches are distributed among these distances:
236 16 0.08
237 186 0.92
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (236 bp):
GCCAAATCTGATATATTCGATCTGCTCTCCACCAATACAGAGACGCCAAATCTGCTATCTTCGAT
CTGCTCTCCGTCAACACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAG
AAGCCAAATCTGCTACTTTCGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTGCTATCTTCG
ATCTACTCTCCACCAATACAAGACGCCAAATCTATAAAGAC
Found at i:42262939 original size:128 final size:128
Alignment explanation
Indices: 42262697--42263062 Score: 574
Period size: 128 Copynumber: 2.8 Consensus size: 128
42262687 TCGAGAAGAT
* * * *
42262697 AAGACCTACAATCGTCAGCCCACTTCACTACAACTTTAGGGAGCTAGGACTTGCTTAAATCTGCT
1 AAGA-CTATAATCTTCAGCCTACTCCACTACAACTTTAGGGAGCTAGGACTTGCTTAAATCTGCT
42262762 TTACTGCAACATCAGGAAGCCTAGATTCCGTCTTCGATCTGGCCCACTGCAATCTTAGGGAAAC
65 TTACTGCAACATCAGGAAGCCTAGATTCCGTCTTCGATCTGGCCCACTGCAATCTTAGGGAAAC
*
42262826 AAGACTATAATCTTCAGCCTACTCCACTACAACTTTAGAGAGCTAGGACTTGCTTAAATCTGCTT
1 AAGACTATAATCTTCAGCCTACTCCACTACAACTTTAGGGAGCTAGGACTTGCTTAAATCTGCTT
42262891 TACTGCAACATCAGGAAGCCTAGATTCCGTCTTCGATCTGGCCCACTGCAATCTTAGGGAAAC
66 TACTGCAACATCAGGAAGCCTAGATTCCGTCTTCGATCTGGCCCACTGCAATCTTAGGGAAAC
* *
42262954 AAGACTATAATCTTCAGCCTACTCCACTACAACTTTAGGGAGCTA-GAATGGTGGCTTAAATCTA
1 AAGACTATAATCTTCAGCCTACTCCACTACAACTTTAGGGAGCTAGGACT--T-GCTTAAATCTG
* *
42263018 CTTCACTGCAACTTCAGGAAG-CTCAGATTCGCCGTCTTCGATCTG
63 CTTTACTGCAACATCAGGAAGCCT-AGATT--CCGTCTTCGATCTG
42263063 TTTCACTGTA
Statistics
Matches: 221, Mismatches: 10, Indels: 9
0.92 0.04 0.04
Matches are distributed among these distances:
127 3 0.01
128 163 0.74
129 7 0.03
130 34 0.15
132 14 0.06
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (128 bp):
AAGACTATAATCTTCAGCCTACTCCACTACAACTTTAGGGAGCTAGGACTTGCTTAAATCTGCTT
TACTGCAACATCAGGAAGCCTAGATTCCGTCTTCGATCTGGCCCACTGCAATCTTAGGGAAAC
Found at i:42263201 original size:132 final size:132
Alignment explanation
Indices: 42263058--42263414 Score: 597
Period size: 132 Copynumber: 2.7 Consensus size: 132
42263048 GCCGTCTTCG
* * *
42263058 ATCTGTTTCACTGTAACTTTAGGAAGCTCAGATTCGCCGTCTTCGATCTGTTTCGCTGCAACTTT
1 ATCTGTTTCACTGTAACTTTAGGAAGCTCAGATTCGCCGTCTTCGATCTGCTTCACTGCAACTTC
*
42263123 AGGGAAACAAGATCTGAAATTTTAGCCTACTCCACTGCAACTTTAGGGAGCTAGGTTGGTGGCTT
66 AGGGAAACAAGATCTGAAATTTTAGCCTACTCCACTACAACTTTAGGGAGCTAGGTTGGTGGCTT
42263188 AA
131 AA
* * * *
42263190 ATCTGTTTCACTGCAACTTCAGGAAGCTCAGATTCGCCGTCTTTGATCTGCTTCACTGTAACTTC
1 ATCTGTTTCACTGTAACTTTAGGAAGCTCAGATTCGCCGTCTTCGATCTGCTTCACTGCAACTTC
*
42263255 AGGGAAACAAGATCTGAAATTTTAGCCTACTCTACTACAACTTTAGGGAGCTAGGTTGGTGGCTT
66 AGGGAAACAAGATCTGAAATTTTAGCCTACTCCACTACAACTTTAGGGAGCTAGGTTGGTGGCTT
42263320 AA
131 AA
* *
42263322 ATCTGCTTCACTGTAACTTTAGGAAGCTCAGATTCGCCGTTTTCGATCTGCTTCACTGCAACTTC
1 ATCTGTTTCACTGTAACTTTAGGAAGCTCAGATTCGCCGTCTTCGATCTGCTTCACTGCAACTTC
* *
42263387 AGGGAAACAAAATCTAAAATTTTAGCCT
66 AGGGAAACAAGATCTGAAATTTTAGCCT
42263415 CATAGGCCCA
Statistics
Matches: 208, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
132 208 1.00
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (132 bp):
ATCTGTTTCACTGTAACTTTAGGAAGCTCAGATTCGCCGTCTTCGATCTGCTTCACTGCAACTTC
AGGGAAACAAGATCTGAAATTTTAGCCTACTCCACTACAACTTTAGGGAGCTAGGTTGGTGGCTT
AA
Found at i:42263213 original size:177 final size:177
Alignment explanation
Indices: 42262883--42263253 Score: 520
Period size: 177 Copynumber: 2.1 Consensus size: 177
42262873 ACTTGCTTAA
* * * *
42262883 ATCTGCTTTACTGCAACATCAGGAAGC-CTAGATT--CCGTCTTCGATCTGGCCCACTGCAATCT
1 ATCTGCTTCACTGTAACTTTAGGAAGCTC-AGATTCGCCGTCTTCGATCTGGCCCACTGCAATCT
42262945 TAGGGAAACAAGACTATAATCTTCAGCCTACTCCACTACAACTTTAGGGAGCTAGAATGGTGGCT
65 TAGGGAAACAAGACTATAATCTTCAGCCTACTCCACTACAACTTTAGGGAGCTAGAATGGTGGCT
42263010 TAAATCTACTTCACTGCAACTTCAGGAAGCTCAGATTCGCCGTCTTCG
130 TAAATCTACTTCACTGCAACTTCAGGAAGCTCAGATTCGCCGTCTTCG
* *** *
42263058 ATCTGTTTCACTGTAACTTTAGGAAGCTCAGATTCGCCGTCTTCGATCTGTTTCGCTGCAA-CTT
1 ATCTGCTTCACTGTAACTTTAGGAAGCTCAGATTCGCCGTCTTCGATCTGGCCCACTGCAATC-T
* * **
42263122 TAGGGAAACAAGATCTGA-AAT-TTTAGCCTACTCCACTGCAACTTTAGGGAGCTAGGTTGGTGG
65 TAGGGAAACAAGA-CT-ATAATCTTCAGCCTACTCCACTACAACTTTAGGGAGCTAGAATGGTGG
** *
42263185 CTTAAATCTGTTTCACTGCAACTTCAGGAAGCTCAGATTCGCCGTCTTTG
128 CTTAAATCTACTTCACTGCAACTTCAGGAAGCTCAGATTCGCCGTCTTCG
42263235 ATCTGCTTCACTGTAACTT
1 ATCTGCTTCACTGTAACTT
42263254 CAGGGAAACA
Statistics
Matches: 173, Mismatches: 17, Indels: 10
0.87 0.09 0.05
Matches are distributed among these distances:
175 27 0.16
176 2 0.01
177 138 0.80
178 5 0.03
179 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.31
Consensus pattern (177 bp):
ATCTGCTTCACTGTAACTTTAGGAAGCTCAGATTCGCCGTCTTCGATCTGGCCCACTGCAATCTT
AGGGAAACAAGACTATAATCTTCAGCCTACTCCACTACAACTTTAGGGAGCTAGAATGGTGGCTT
AAATCTACTTCACTGCAACTTCAGGAAGCTCAGATTCGCCGTCTTCG
Found at i:42263348 original size:309 final size:305
Alignment explanation
Indices: 42262755--42263385 Score: 811
Period size: 309 Copynumber: 2.1 Consensus size: 305
42262745 ACTTGCTTAA
* * *
42262755 ATCTGCTTTACTGCAACATCAGGAAGC-CTAGATT--CCGTCTTCGATCTGGCCCACTGCAATCT
1 ATCTGCTTCACTGCAACTTTAGGAAGCTC-AGATTCGCCGTCTTCGATCTGGCCCACTGCAATCT
42262817 TAGGGAAACAAGACTATAATCTTCAGCCTACTCCACTACAACTTTAGAGAGCTAGGACTTGCTTA
65 TAGGGAAACAAGACTATAATCTTCAGCCTACTCCACTACAACTTTAGAGAGCTAGGACTTGCTTA
42262882 AATCTGCTTTACTGCAACATCAGGAAGCCTAGATTCCGTCTTCGATCTGGCCCACTGCAATCTTA
130 AATCTGCTTTACTGCAACATCAGGAAGCCTAGATTCCGTCTTCGATCTGGCCCACTGCAATCTTA
42262947 GGGAAACAAGACTATAATCTTCAGCCTACTCCACTACAACTTTAGGGAGCTAGAATGGTGGCTTA
195 GGGAAACAAGACTATAATCTTCAGCCTACTCCACTACAACTTTAGGGAGCTAGAATGGTGGCTTA
42263012 AATCTACTTCACTGCAACTTCAGGAAGCTCAGATTCGCCGTCTTCG
260 AATCTACTTCACTGCAACTTCAGGAAGCTCAGATTCGCCGTCTTCG
* * *** *
42263058 ATCTGTTTCACTGTAACTTTAGGAAGCTCAGATTCGCCGTCTTCGATCTGTTTCGCTGCAA-CTT
1 ATCTGCTTCACTGCAACTTTAGGAAGCTCAGATTCGCCGTCTTCGATCTGGCCCACTGCAATC-T
* * * *
42263122 TAGGGAAACAAGATCTGA-AAT-TTTAGCCTACTCCACTGCAACTTTAGGGAGCTAGG-TTGGTG
65 TAGGGAAACAAGA-CT-ATAATCTTCAGCCTACTCCACTACAACTTTAGAGAGCTAGGACT--T-
* * *
42263184 GCTTAAATCTG-TTTCACTGCAACTTCAGGAAG-CTCAGATTCGCCGTCTTTGATCT-GCTTCAC
125 GCTTAAATCTGCTTT-ACTGCAACATCAGGAAGCCT-AGATT--CCGTCTTCGATCTGGC-CCAC
* * *
42263246 TGTAA-CTTCAGGGAAACAAGATCTGA-AAT-TTTAGCCTACTCTACTACAACTTTAGGGAGCTA
185 TGCAATCTT-AGGGAAACAAGA-CT-ATAATCTTCAGCCTACTCCACTACAACTTTAGGGAGCTA
** * * * *
42263308 GGTTGGTGGCTTAAATCTGCTTCACTGTAACTTTAGGAAGCTCAGATTCGCCGTTTTCG
247 GAATGGTGGCTTAAATCTACTTCACTGCAACTTCAGGAAGCTCAGATTCGCCGTCTTCG
42263367 ATCTGCTTCACTGCAACTT
1 ATCTGCTTCACTGCAACTT
42263386 CAGGGAAACA
Statistics
Matches: 284, Mismatches: 27, Indels: 28
0.84 0.08 0.08
Matches are distributed among these distances:
303 27 0.10
304 3 0.01
305 67 0.24
306 11 0.04
307 33 0.12
308 5 0.02
309 132 0.46
310 5 0.02
311 1 0.00
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (305 bp):
ATCTGCTTCACTGCAACTTTAGGAAGCTCAGATTCGCCGTCTTCGATCTGGCCCACTGCAATCTT
AGGGAAACAAGACTATAATCTTCAGCCTACTCCACTACAACTTTAGAGAGCTAGGACTTGCTTAA
ATCTGCTTTACTGCAACATCAGGAAGCCTAGATTCCGTCTTCGATCTGGCCCACTGCAATCTTAG
GGAAACAAGACTATAATCTTCAGCCTACTCCACTACAACTTTAGGGAGCTAGAATGGTGGCTTAA
ATCTACTTCACTGCAACTTCAGGAAGCTCAGATTCGCCGTCTTCG
Found at i:42263375 original size:45 final size:45
Alignment explanation
Indices: 42263008--42263385 Score: 211
Period size: 45 Copynumber: 8.5 Consensus size: 45
42262998 AGAATGGTGG
* * *
42263008 CTTAAATCTACTTCACTGCAACTTCAGGAAGCTCAGATTCGCCGT
1 CTTAGATCTGCTTCACTGCAACTTTAGGAAGCTCAGATTCGCCGT
* * *
42263053 CTTCGATCTGTTTCACTGTAACTTTAGGAAGCTCAGATTCGCCGT
1 CTTAGATCTGCTTCACTGCAACTTTAGGAAGCTCAGATTCGCCGT
* * * * * ***
42263098 CTTCGATCTGTTTCGCTGCAACTTTAGGGAAAC-AAGA-TCTGAAAT
1 CTTAGATCTGCTTCACTGCAACTTTA-GGAAGCTCAGATTC-GCCGT
* * * * * * ** *
42263143 TTTAG-CCTACTCCACTGCAACTTTAGGGAGCT-AGGTT-GGTGG
1 CTTAGATCTGCTTCACTGCAACTTTAGGAAGCTCAGATTCGCCGT
* * *
42263185 CTTAAATCTGTTTCACTGCAACTTCAGGAAGCTCAGATTCGCCGT
1 CTTAGATCTGCTTCACTGCAACTTTAGGAAGCTCAGATTCGCCGT
* * * * * ***
42263230 CTTTGATCTGCTTCACTGTAACTTCAGGGAAAC-AAGA-TCTGAAAT
1 CTTAGATCTGCTTCACTGCAACTTTA-GGAAGCTCAGATTC-GCCGT
* * * * * * ** *
42263275 TTTAG-CCTAC-TCTACTACAACTTTAGGGAGCT-AGGTT-GGTGG
1 CTTAGATCTGCTTC-ACTGCAACTTTAGGAAGCTCAGATTCGCCGT
* *
42263317 CTTAAATCTGCTTCACTGTAACTTTAGGAAGCTCAGATTCGCCGT
1 CTTAGATCTGCTTCACTGCAACTTTAGGAAGCTCAGATTCGCCGT
* *
42263362 TTTCGATCTGCTTCACTGCAACTT
1 CTTAGATCTGCTTCACTGCAACTT
42263386 CAGGGAAACA
Statistics
Matches: 240, Mismatches: 77, Indels: 32
0.69 0.22 0.09
Matches are distributed among these distances:
42 8 0.03
43 54 0.22
44 43 0.18
45 125 0.52
46 10 0.04
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.33
Consensus pattern (45 bp):
CTTAGATCTGCTTCACTGCAACTTTAGGAAGCTCAGATTCGCCGT
Found at i:42266013 original size:22 final size:23
Alignment explanation
Indices: 42265985--42266027 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
42265975 TTCACAGTCC
42265985 TATTGTT-CAAAACACCCTAACA
1 TATTGTTCCAAAACACCCTAACA
42266007 TATTGTTCCAAAACACCCTAA
1 TATTGTTCCAAAACACCCTAA
42266028 GTACGTAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.40, C:0.28, G:0.05, T:0.28
Consensus pattern (23 bp):
TATTGTTCCAAAACACCCTAACA
Found at i:42267077 original size:5 final size:5
Alignment explanation
Indices: 42267067--42267103 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
42267057 AATGCAAATG
42267067 ATGCA ATGCA ATGCA ATGCAA ATG-- ATGCA ATGCA ATG
1 ATGCA ATGCA ATGCA ATGC-A ATGCA ATGCA ATGCA ATG
42267104 TAAATGCATG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
3 3 0.10
5 22 0.76
6 4 0.14
ACGTcount: A:0.41, C:0.16, G:0.22, T:0.22
Consensus pattern (5 bp):
ATGCA
Found at i:42267081 original size:19 final size:19
Alignment explanation
Indices: 42267072--42267109 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
42267062 AAATGATGCA
42267072 ATGCAATGCAATGCAAATG
1 ATGCAATGCAATGCAAATG
*
42267091 ATGCAATGCAATGTAAATG
1 ATGCAATGCAATGCAAATG
42267110 CATGGGATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.13, G:0.21, T:0.24
Consensus pattern (19 bp):
ATGCAATGCAATGCAAATG
Found at i:42267089 original size:24 final size:24
Alignment explanation
Indices: 42267057--42267103 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
42267047 TGGGAAATTT
42267057 AATGCAAATGATGCAATGCAATGC
1 AATGCAAATGATGCAATGCAATGC
42267081 AATGCAAATGATGCAATGCAATG
1 AATGCAAATGATGCAATGCAATG
42267104 TAAATGCATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.43, C:0.15, G:0.21, T:0.21
Consensus pattern (24 bp):
AATGCAAATGATGCAATGCAATGC
Found at i:42267282 original size:22 final size:24
Alignment explanation
Indices: 42267245--42267293 Score: 68
Period size: 22 Copynumber: 2.1 Consensus size: 24
42267235 ATTAATTTTT
42267245 TATTATTATATATTATTACG-TATA
1 TATTATTATATATTATTA-GTTATA
42267269 TATT-TTA-ATATTATTAGTTATA
1 TATTATTATATATTATTAGTTATA
42267291 TAT
1 TAT
42267294 CTTTTATACT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 1 0.04
22 16 0.67
23 3 0.12
24 4 0.17
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (24 bp):
TATTATTATATATTATTAGTTATA
Found at i:42267445 original size:22 final size:22
Alignment explanation
Indices: 42267420--42267485 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 22
42267410 ATCATTTCTA
42267420 ATATATATATTGTATATGTTTT
1 ATATATATATTGTATATGTTTT
*
42267442 ATATATAT-TATGTATATATTTT
1 ATATATATAT-TGTATATGTTTT
42267464 -TA-ATATTATTAGTTATATGTTT
1 ATATATA-TATT-G-TATATGTTT
42267486 CTTATACTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
20 3 0.08
21 5 0.14
22 21 0.57
23 8 0.22
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (22 bp):
ATATATATATTGTATATGTTTT
Found at i:42267496 original size:23 final size:23
Alignment explanation
Indices: 42267432--42267533 Score: 68
Period size: 23 Copynumber: 4.2 Consensus size: 23
42267422 ATATATATTG
42267432 TATATGTTTTATATATATTATGTA
1 TATATGTTTT-TATATATTATGTA
*
42267456 TATAT-TTTTAATATTATTA-GT-
1 TATATGTTTTTATA-TATTATGTA
*
42267477 TATATGTTTCTTATACTATTCCAGGTA
1 TATATGTTT-TTATA-TATT--ATGTA
*
42267504 CATAT-TTTTTATATCATCTTATGTA
1 TATATGTTTTTATAT-A--TTATGTA
42267529 TATAT
1 TATAT
42267534 TCTTAAATAC
Statistics
Matches: 62, Mismatches: 6, Indels: 19
0.71 0.07 0.22
Matches are distributed among these distances:
21 5 0.08
22 8 0.13
23 17 0.27
24 6 0.10
25 15 0.24
26 5 0.08
27 6 0.10
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.56
Consensus pattern (23 bp):
TATATGTTTTTATATATTATGTA
Found at i:42268417 original size:130 final size:132
Alignment explanation
Indices: 42268065--42268409 Score: 337
Period size: 130 Copynumber: 2.6 Consensus size: 132
42268055 TAAAATACGC
* * * *
42268065 GTGAAATTCCGAAA-GAGATATTCGATTATTTTGAACAAACGAGAGATTGCAACCCAGCACGATA
1 GTGAAATACC-AAAGGA-ATATTCGATTGTTTTGAACAAACGAGAAATCGCAACCCAGCACGATA
**** *
42268129 GGGCACT-ATTCCCCGAATTGCCAAACATCAAACATTTTTTTCTGTTTTAAAGAGTTTTTAGAAA
64 GGGCA-TGATT-CCCGAATTGCCAAACATCAAACATCACATTCTGTTTTAAAGAGATTTTAGAAA
*
42268193 ACGTGA
127 ACATGA
* * * * * * * *
42268199 GTGAAATTCCGAAGGGATCTTCGATCGTTTTGAACAAATGAAAAAGCGCAACCCAGCACGATAGG
1 GTGAAATACCAAAGGAATATTCGATTGTTTTGAACAAACGAGAAATCGCAACCCAGCACGATAGG
** * * *
42268264 GC-TCGATTTTCAAATTGCCAAACATCGAACGTCACATTC-GTTTTGAAA-A-ATTTTA-ATAAA
66 GCAT-GATTCCCGAATTGCCAAACATCAAACATCACATTCTGTTTT-AAAGAGATTTTAGA-AAA
42268324 CATGA
128 CATGA
* *
42268329 GTGAAA-ACCTAAAGGAATATTCGATTGTTTTGAACAAGCGAGAAATCACAACCCAGCACGATAG
1 GTGAAATACC-AAAGGAATATTCGATTGTTTTGAACAAACGAGAAATCGCAACCCAGCACGATAG
42268393 GGCATGATTCCCGAATT
65 GGCATGATTCCCGAATT
42268410 ATCAAACAGC
Statistics
Matches: 170, Mismatches: 34, Indels: 18
0.77 0.15 0.08
Matches are distributed among these distances:
129 3 0.02
130 75 0.44
131 8 0.05
132 25 0.15
133 48 0.28
134 11 0.06
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (132 bp):
GTGAAATACCAAAGGAATATTCGATTGTTTTGAACAAACGAGAAATCGCAACCCAGCACGATAGG
GCATGATTCCCGAATTGCCAAACATCAAACATCACATTCTGTTTTAAAGAGATTTTAGAAAACAT
GA
Found at i:42282873 original size:11 final size:11
Alignment explanation
Indices: 42282857--42282883 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
42282847 CAAGCAAATG
42282857 AGAACGACAAA
1 AGAACGACAAA
42282868 AGAACGACAAA
1 AGAACGACAAA
42282879 AGAAC
1 AGAAC
42282884 AATCAGAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.63, C:0.19, G:0.19, T:0.00
Consensus pattern (11 bp):
AGAACGACAAA
Found at i:42284122 original size:44 final size:44
Alignment explanation
Indices: 42284058--42284217 Score: 241
Period size: 44 Copynumber: 3.6 Consensus size: 44
42284048 TTATGCCTAA
*
42284058 AAAAAGAGATCAATGTGAAAACCCGAAAAGGGCGTCTTGATGAAC
1 AAAAA-AGATCAAGGTGAAAACCCGAAAAGGGCGTCTTGATGAAC
42284103 AAAAAAGATCAAGGTGAAAACCCGAAAAGGGCGTCTTGATGAAC
1 AAAAAAGATCAAGGTGAAAACCCGAAAAGGGCGTCTTGATGAAC
* * *
42284147 AAAAAGGATCAAGGTGAAAACCCAAAAAGGGCGTCTTGATTAAC
1 AAAAAAGATCAAGGTGAAAACCCGAAAAGGGCGTCTTGATGAAC
* *
42284191 ACAAAAGAT-TAGGATGAAAACCCGAAA
1 AAAAAAGATCAAGG-TGAAAACCCGAAA
42284218 TGGCGTTCTA
Statistics
Matches: 106, Mismatches: 8, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
43 3 0.03
44 98 0.92
45 5 0.05
ACGTcount: A:0.47, C:0.16, G:0.23, T:0.14
Consensus pattern (44 bp):
AAAAAAGATCAAGGTGAAAACCCGAAAAGGGCGTCTTGATGAAC
Found at i:42285226 original size:77 final size:75
Alignment explanation
Indices: 42285009--42285226 Score: 285
Period size: 75 Copynumber: 2.9 Consensus size: 75
42284999 TTCTGTTTTC
* * * * *
42285009 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAAGACAAGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGTTGAGGTATTTTTAATTTC
* *
42285074 CGTCTTTCAA
66 TGTCATTCAA
* *
42285084 AAAAATCAATTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGTTGAGGTAATTTTAATTTC
1 AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGTTGAGGTATTTTTAATTTC
42285149 TGTTCATT-AA
66 TG-TCATTCAA
* * * *
42285159 AAAAATCAACTCATATTGTGAGATGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTTAGTT
1 AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGG--ACACGTTGAGGTATTTTTAATT
42285224 TCT
64 TCT
42285227 ATCAACTCAT
Statistics
Matches: 125, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
75 99 0.79
76 4 0.03
77 22 0.18
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (75 bp):
AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGTTGAGGTATTTTTAATTTC
TGTCATTCAA
Found at i:42285264 original size:64 final size:64
Alignment explanation
Indices: 42285163--42285292 Score: 206
Period size: 64 Copynumber: 2.0 Consensus size: 64
42285153 CATTAAAAAA
* * * * *
42285163 ATCAACTCATATTGTGAGATGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTTAGTTTCT
1 ATCAACTCATATTGCGAGAGGTGAGTTGACCCTCGGGTCACACGCTGAGGTATTTTCAATTTCT
*
42285227 ATCAACTCATATTGCGAGAGGTGAGTTGACCCTCGGGTCACATGCTGAGGTATTTTCAATTTCT
1 ATCAACTCATATTGCGAGAGGTGAGTTGACCCTCGGGTCACACGCTGAGGTATTTTCAATTTCT
42285291 AT
1 AT
42285293 TTTTTTAAAT
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (64 bp):
ATCAACTCATATTGCGAGAGGTGAGTTGACCCTCGGGTCACACGCTGAGGTATTTTCAATTTCT
Found at i:42285401 original size:90 final size:89
Alignment explanation
Indices: 42285227--42285388 Score: 245
Period size: 90 Copynumber: 1.8 Consensus size: 89
42285217 TTTAGTTTCT
* * * *
42285227 ATCAACTCATATTGCGAGAGGTGAGTTGACCCTCGGGTCACATGCTGAGGTATTTTCAATTTCTA
1 ATCAACTCATATTGCGAGAGGTGAGTTGACCCTCGGGCCACACGCCGAGGTATTTTCAAATTC-A
*
42285292 TTTTTTTAAATTAGGTTTTTCAAAA
65 TGTTTTTAAATTAGGTTTTTCAAAA
* *
42285317 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCCACACGCCGAGGTCTTTTCAAATTC-T
1 ATCAACTCATATTGCGAGAGGTGAGTTGACCCTCGGGCCACACGCCGAGGTATTTTCAAATTCAT
42285381 GTTTTTAA
66 GTTTTTAA
42285389 TTTCTGTTTT
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
88 8 0.12
90 57 0.88
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (89 bp):
ATCAACTCATATTGCGAGAGGTGAGTTGACCCTCGGGCCACACGCCGAGGTATTTTCAAATTCAT
GTTTTTAAATTAGGTTTTTCAAAA
Found at i:42285402 original size:15 final size:15
Alignment explanation
Indices: 42285382--42285418 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
42285372 TCAAATTCTG
*
42285382 TTTTTAATTTCTGTT
1 TTTTTAATTTCTATT
42285397 TTTTTAATTTCTATT
1 TTTTTAATTTCTATT
42285412 TTTTTAA
1 TTTTTAA
42285419 AAAATCAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.19, C:0.05, G:0.03, T:0.73
Consensus pattern (15 bp):
TTTTTAATTTCTATT
Found at i:42285700 original size:55 final size:56
Alignment explanation
Indices: 42285567--42285714 Score: 237
Period size: 56 Copynumber: 2.7 Consensus size: 56
42285557 TCTATTCGCC
*
42285567 AAAAATCGACTCATATTGTGAGAAGTGAGTTGAGCCTTTTAGTCTCTGATTTTTCA
1 AAAAATCGACTCATATTGCGAGAAGTGAGTTGAGCCTTTTAGTCTCTGATTTTTCA
42285623 AAAAATCGACTCATATTGCGAGAAGT-AGGTTGAGCCTTTTAGTCTCTG-TTTTTCA
1 AAAAATCGACTCATATTGCGAGAAGTGA-GTTGAGCCTTTTAGTCTCTGATTTTTCA
* * *
42285678 AAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCT
1 AAAAATCGACTCATATTGCGAGAAGTGAGTTGAGCCT
42285715 CAGGTCACAC
Statistics
Matches: 86, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
55 40 0.47
56 46 0.53
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (56 bp):
AAAAATCGACTCATATTGCGAGAAGTGAGTTGAGCCTTTTAGTCTCTGATTTTTCA
Found at i:42285935 original size:19 final size:19
Alignment explanation
Indices: 42285911--42285957 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
42285901 TTGAAATTAC
42285911 AAGTTGTAGCGGAACCCTG
1 AAGTTGTAGCGGAACCCTG
42285930 AAGTTGTAGCGGAACCCTG
1 AAGTTGTAGCGGAACCCTG
42285949 AAGTTGTAG
1 AAGTTGTAG
42285958 TGGAGCGGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.28, C:0.17, G:0.32, T:0.23
Consensus pattern (19 bp):
AAGTTGTAGCGGAACCCTG
Found at i:42287409 original size:3 final size:3
Alignment explanation
Indices: 42287403--42287502 Score: 53
Period size: 3 Copynumber: 31.7 Consensus size: 3
42287393 ATTTTTTTAA
* * *
42287403 TAT TATT TAT TAT T-T TATT TAC CAT TAT T-T ATAT TAT TAA TAT TAT
1 TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TAT -TAT TAT TAT TAT TAT
* * *
42287449 TAT TAT TAG TA- TAT GTTT TAT TAT TAT GTAT ATACT TAT GTAG TAT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT -TAT -TA-T TAT -TAT TAT
42287495 TAT TAT TA
1 TAT TAT TA
42287503 GTCGTTTTTA
Statistics
Matches: 75, Mismatches: 12, Indels: 20
0.70 0.11 0.19
Matches are distributed among these distances:
2 5 0.07
3 51 0.68
4 18 0.24
5 1 0.01
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:42287649 original size:22 final size:24
Alignment explanation
Indices: 42287612--42287660 Score: 68
Period size: 22 Copynumber: 2.1 Consensus size: 24
42287602 ATTAATTTTT
42287612 TATTATTATATATTATTACG-TATA
1 TATTATTATATATTATTA-GTTATA
42287636 TATT-TTA-ATATTATTAGTTATA
1 TATTATTATATATTATTAGTTATA
42287658 TAT
1 TAT
42287661 CTTTTATACT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 1 0.04
22 16 0.67
23 3 0.12
24 4 0.17
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (24 bp):
TATTATTATATATTATTAGTTATA
Found at i:42287813 original size:22 final size:22
Alignment explanation
Indices: 42287788--42287853 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 22
42287778 ATCATTTCTA
42287788 ATATATATATTGTATATGTTTT
1 ATATATATATTGTATATGTTTT
*
42287810 ATATATAT-TATGTATATATTTT
1 ATATATATAT-TGTATATGTTTT
42287832 -TA-ATATTATTAGTTATATGTTT
1 ATATATA-TATT-G-TATATGTTT
42287854 CTTATACTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
20 3 0.08
21 5 0.14
22 21 0.57
23 8 0.22
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (22 bp):
ATATATATATTGTATATGTTTT
Found at i:42287864 original size:23 final size:23
Alignment explanation
Indices: 42287800--42287901 Score: 68
Period size: 23 Copynumber: 4.2 Consensus size: 23
42287790 ATATATATTG
42287800 TATATGTTTTATATATATTATGTA
1 TATATGTTTT-TATATATTATGTA
*
42287824 TATAT-TTTTAATATTATTA-GT-
1 TATATGTTTTTATA-TATTATGTA
*
42287845 TATATGTTTCTTATACTATTCCAGGTA
1 TATATGTTT-TTATA-TATT--ATGTA
*
42287872 CATAT-TTTTTATATCATCTTATGTA
1 TATATGTTTTTATAT-A--TTATGTA
42287897 TATAT
1 TATAT
42287902 TCTTAAATAC
Statistics
Matches: 62, Mismatches: 6, Indels: 19
0.71 0.07 0.22
Matches are distributed among these distances:
21 5 0.08
22 8 0.13
23 17 0.27
24 6 0.10
25 15 0.24
26 5 0.08
27 6 0.10
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.56
Consensus pattern (23 bp):
TATATGTTTTTATATATTATGTA
Found at i:42287945 original size:34 final size:34
Alignment explanation
Indices: 42287895--42287959 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
42287885 TCATCTTATG
*
42287895 TATATATTCTTAAATA-CTATGTTATATATATATA
1 TATATATTCTTAAATACCT-TATTATATATATATA
* *
42287929 TATATATTTTTTAATACCTTATTATATATAT
1 TATATATTCTTAAATACCTTATTATATATAT
42287960 TATTATTACA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
34 25 0.93
35 2 0.07
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.54
Consensus pattern (34 bp):
TATATATTCTTAAATACCTTATTATATATATATA
Found at i:42298604 original size:20 final size:20
Alignment explanation
Indices: 42298581--42298618 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
42298571 TACTTTGCTT
42298581 AAAGTATCGATACCTTTAAC
1 AAAGTATCGATACCTTTAAC
* *
42298601 AAAGTTTCGATATCTTTA
1 AAAGTATCGATACCTTTA
42298619 TTCTGGTATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (20 bp):
AAAGTATCGATACCTTTAAC
Found at i:42307273 original size:4 final size:4
Alignment explanation
Indices: 42307264--42307288 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
42307254 TGTATAAGTT
42307264 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
42307289 AATAATTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:42315497 original size:75 final size:75
Alignment explanation
Indices: 42315374--42315523 Score: 282
Period size: 75 Copynumber: 2.0 Consensus size: 75
42315364 GTTTGCCATT
*
42315374 GAAGTTGAAAAGTGATCCGAAAGAAAACTTTTTAAGAACGCTATTAAAAGTTGCTTATGAAAAGA
1 GAAGTTGAAAAGTGATCCAAAAGAAAACTTTTTAAGAACGCTATTAAAAGTTGCTTATGAAAAGA
42315439 TAAAATGAAG
66 TAAAATGAAG
*
42315449 GAAGTTGAAAAGTGATCCAAAAGAAAACTTTTTAAGAACTCTATTAAAAGTTGCTTATGAAAAGA
1 GAAGTTGAAAAGTGATCCAAAAGAAAACTTTTTAAGAACGCTATTAAAAGTTGCTTATGAAAAGA
42315514 TAAAATGAAG
66 TAAAATGAAG
42315524 AATTAATAGA
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 73 1.00
ACGTcount: A:0.47, C:0.08, G:0.19, T:0.26
Consensus pattern (75 bp):
GAAGTTGAAAAGTGATCCAAAAGAAAACTTTTTAAGAACGCTATTAAAAGTTGCTTATGAAAAGA
TAAAATGAAG
Found at i:42315949 original size:17 final size:17
Alignment explanation
Indices: 42315938--42315992 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 17
42315928 ATTAATTATT
42315938 TTTTAAAATTAAAAATA
1 TTTTAAAATTAAAAATA
*
42315955 TTTTAAAATTTAAAATTA
1 TTTTAAAA-TTAAAAATA
*
42315973 TTTAAAATATATAAAAATA
1 TTTTAAA-AT-TAAAAATA
42315992 T
1 T
42315993 CAATTAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
17 8 0.25
18 15 0.47
19 9 0.28
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TTTTAAAATTAAAAATA
Found at i:42315967 original size:18 final size:18
Alignment explanation
Indices: 42315938--42315992 Score: 69
Period size: 17 Copynumber: 3.1 Consensus size: 18
42315928 ATTAATTATT
42315938 TTTTAAAA-TTAAAAATA
1 TTTTAAAATTTAAAAATA
*
42315955 TTTTAAAATTTAAAATTA
1 TTTTAAAATTTAAAAATA
42315973 -TTTAAAATATATAAAAATA
1 TTTTAAAAT-T-TAAAAATA
42315992 T
1 T
42315993 CAATTAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
17 16 0.50
18 9 0.28
19 7 0.22
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TTTTAAAATTTAAAAATA
Found at i:42323362 original size:18 final size:19
Alignment explanation
Indices: 42323326--42323363 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
42323316 TTGAAGCTTT
*
42323326 ATTTTAATATTTTTTATAC
1 ATTTTAATATTTATTATAC
42323345 ATTTTAAT-TTTATTATAC
1 ATTTTAATATTTATTATAC
42323363 A
1 A
42323364 CATTTTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTTTAATATTTATTATAC
Found at i:42323368 original size:20 final size:19
Alignment explanation
Indices: 42323326--42323370 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
42323316 TTGAAGCTTT
*
42323326 ATTTTAATATTTTTTATAC
1 ATTTTAATATTTTTTACAC
42323345 ATTTTAAT-TTTATTATACAC
1 ATTTTAATATTT-TT-TACAC
42323365 ATTTTA
1 ATTTTA
42323371 TTACTTCGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 3 0.13
19 10 0.43
20 10 0.43
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (19 bp):
ATTTTAATATTTTTTACAC
Found at i:42326131 original size:20 final size:19
Alignment explanation
Indices: 42326087--42326131 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
42326077 GCTAGGTTTG
*
42326087 ATATATTTTCTTTTTTATTA
1 ATAT-TTTTCTTTTTTATGA
*
42326107 TTATTTTTCTTTTTTAATGA
1 ATATTTTTCTTTTTT-ATGA
42326127 ATATT
1 ATATT
42326132 ACTATCTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.69
Consensus pattern (19 bp):
ATATTTTTCTTTTTTATGA
Found at i:42331908 original size:15 final size:16
Alignment explanation
Indices: 42331890--42331963 Score: 55
Period size: 15 Copynumber: 4.6 Consensus size: 16
42331880 TAAAATTTCA
42331890 ATAAA-TAAAAAATAT
1 ATAAATTAAAAAATAT
**
42331905 ATAAAATTATTAAATAT
1 AT-AAATTAAAAAATAT
*
42331922 -TAAATTAAAAATTAT
1 ATAAATTAAAAAATAT
*
42331937 ATAATATTTTAAAAAAAAT
1 ATAA-A--TTAAAAAATAT
42331956 -TAAATTAA
1 ATAAATTAA
42331964 TATGAGTTTG
Statistics
Matches: 46, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
15 17 0.37
16 7 0.15
17 10 0.22
18 3 0.07
19 9 0.20
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
ATAAATTAAAAAATAT
Found at i:42331931 original size:32 final size:30
Alignment explanation
Indices: 42331891--42331949 Score: 82
Period size: 32 Copynumber: 1.9 Consensus size: 30
42331881 AAAATTTCAA
42331891 TAAATAAAAAATATATAAAATTATTAAATAT
1 TAAATAAAAAATATATAAAATT-TTAAATAT
* *
42331922 TAAATTAAAAATTATATAATATTTTAAA
1 TAAA-TAAAAAATATATAAAATTTTAAA
42331950 AAAAATTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 9 0.36
32 16 0.64
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (30 bp):
TAAATAAAAAATATATAAAATTTTAAATAT
Found at i:42331935 original size:22 final size:22
Alignment explanation
Indices: 42331907--42331966 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
42331897 AAAAATATAT
42331907 AAAATTAT-TAA-ATATTAAATTA
1 AAAATTATATAATATATTAAA--A
*
42331929 AAAATTATATAATATTTTAAAA
1 AAAATTATATAATATATTAAAA
*
42331951 AAAATTAAATTAATAT
1 AAAATTATA-TAATAT
42331967 GAGTTTGTGC
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
22 17 0.52
23 9 0.27
24 7 0.21
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
AAAATTATATAATATATTAAAA
Found at i:42334541 original size:8 final size:8
Alignment explanation
Indices: 42334530--42334566 Score: 65
Period size: 8 Copynumber: 4.5 Consensus size: 8
42334520 AGTTTTTTTT
42334530 TTTTTTAC
1 TTTTTTAC
42334538 TTTTTTAC
1 TTTTTTAC
42334546 TTTTTTAC
1 TTTTTTAC
42334554 TTTTTTGAC
1 TTTTTT-AC
42334563 TTTT
1 TTTT
42334567 ATTTTTTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
8 22 0.79
9 6 0.21
ACGTcount: A:0.11, C:0.11, G:0.03, T:0.76
Consensus pattern (8 bp):
TTTTTTAC
Found at i:42334566 original size:15 final size:15
Alignment explanation
Indices: 42334531--42334575 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
42334521 GTTTTTTTTT
42334531 TTTTTACTTTTTTAC
1 TTTTTACTTTTTTAC
42334546 TTTTTTACTTTTTTGAC
1 -TTTTTACTTTTTT-AC
*
42334563 -TTTTATTTTTTTA
1 TTTTTACTTTTTTA
42334576 TGTTTTGTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
14 1 0.04
15 11 0.41
16 13 0.48
17 2 0.07
ACGTcount: A:0.13, C:0.09, G:0.02, T:0.76
Consensus pattern (15 bp):
TTTTTACTTTTTTAC
Found at i:42334581 original size:22 final size:22
Alignment explanation
Indices: 42334540--42334600 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 22
42334530 TTTTTTACTT
* *
42334540 TTTTACTTTTTTACTTTTTTGAC
1 TTTTATTTTTTTA-TGTTTTGAC
*
42334563 TTTTATTTTTTTATGTTTTGTC
1 TTTTATTTTTTTATGTTTTGAC
42334585 TTTTATCTTTATTTAT
1 TTTTAT-TTT-TTTAT
42334601 TTATTTATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
22 13 0.39
23 15 0.45
24 5 0.15
ACGTcount: A:0.13, C:0.08, G:0.05, T:0.74
Consensus pattern (22 bp):
TTTTATTTTTTTATGTTTTGAC
Found at i:42334676 original size:24 final size:23
Alignment explanation
Indices: 42334634--42334695 Score: 65
Period size: 26 Copynumber: 2.7 Consensus size: 23
42334624 AAAATTTGAA
*
42334634 ATATATATTTGAAATATTTTATTAAT
1 ATATATATTT-TAATATTTTA--AAT
42334660 ATATATATTTTAA-ATTTTAAAT
1 ATATATATTTTAATATTTTAAAT
*
42334682 ATAT-TTTTTTAATA
1 ATATATATTTTAATA
42334696 ATATAAAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
21 7 0.21
22 8 0.24
24 6 0.18
25 2 0.06
26 10 0.30
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (23 bp):
ATATATATTTTAATATTTTAAAT
Found at i:42334755 original size:29 final size:31
Alignment explanation
Indices: 42334722--42334789 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
42334712 TATTTTAAAC
42334722 TTTCAAATTT-GTT-A-TTAGTTTTATAATAT
1 TTTCAAATTTAGTTAACTT-GTTTTATAATAT
* *
42334751 TTTCAATTTTATTTAACTTGTTTTATAATAT
1 TTTCAAATTTAGTTAACTTGTTTTATAATAT
42334782 TTT-AAATT
1 TTTCAAATT
42334790 ATGATTTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
29 9 0.27
30 6 0.18
31 16 0.48
32 2 0.06
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.60
Consensus pattern (31 bp):
TTTCAAATTTAGTTAACTTGTTTTATAATAT
Found at i:42334959 original size:32 final size:32
Alignment explanation
Indices: 42334887--42334982 Score: 81
Period size: 30 Copynumber: 3.0 Consensus size: 32
42334877 AATTTGAATT
* * * * *
42334887 AATAAAAATATATATATATATATTTGTTAAAA
1 AATAAAAATTTATTTAAATATATATATTAAAA
*
42334919 AAT--GAATTTATTTAAATATATATATTAAAA
1 AATAAAAATTTATTTAAATATATATATTAAAA
* *
42334949 AATAAAAATTTAAATTTAAAT-TAAAAATTAAAA
1 AATAAAAATTT--ATTTAAATATATATATTAAAA
42334982 A
1 A
42334983 TATATATTAT
Statistics
Matches: 51, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
30 24 0.47
32 8 0.16
33 11 0.22
34 8 0.16
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (32 bp):
AATAAAAATTTATTTAAATATATATATTAAAA
Found at i:42334980 original size:26 final size:28
Alignment explanation
Indices: 42334928--42334983 Score: 80
Period size: 26 Copynumber: 2.1 Consensus size: 28
42334918 AAATGAATTT
*
42334928 ATTTAAATATATATATTAAAAAATAAAA
1 ATTTAAATATATAAATTAAAAAATAAAA
*
42334956 ATTTAAAT-T-TAAATTAAAAATTAAAA
1 ATTTAAATATATAAATTAAAAAATAAAA
42334982 AT
1 AT
42334984 ATATATTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 17 0.65
27 1 0.04
28 8 0.31
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (28 bp):
ATTTAAATATATAAATTAAAAAATAAAA
Found at i:42335400 original size:19 final size:21
Alignment explanation
Indices: 42335354--42335402 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
42335344 TTTAAAAATC
*
42335354 ATAATTTAA-AATATTATAAA
1 ATAATTAAATAATATTATAAA
42335374 ATAAATTAAATAATATT-TAAA
1 AT-AATTAAATAATATTATAAA
42335395 AT-ATTAAA
1 ATAATTAAA
42335403 AAACTAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 6 0.23
20 2 0.08
21 12 0.46
22 6 0.23
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
ATAATTAAATAATATTATAAA
Found at i:42335486 original size:21 final size:23
Alignment explanation
Indices: 42335462--42335511 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
42335452 TTATATTATT
*
42335462 AAAAATAT-ATATT-AATATTTA
1 AAAAATATAATATTCAAAATTTA
*
42335483 AAAAA-ATAATATTCAAAATTTT
1 AAAAATATAATATTCAAAATTTA
42335505 AAAAATA
1 AAAAATA
42335512 ATTTAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 2 0.08
21 10 0.42
22 11 0.46
23 1 0.04
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (23 bp):
AAAAATATAATATTCAAAATTTA
Found at i:42335512 original size:21 final size:20
Alignment explanation
Indices: 42335460--42335519 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 20
42335450 TTTTATATTA
*
42335460 TTAAAAATATATATTAATATT
1 TTAAAAATA-ATATTAAAATT
*
42335481 TAAAAAAATAATATTCAAAATT
1 T-TAAAAATAATATT-AAAATT
42335503 TTAAAAATAAT-TTAAAA
1 TTAAAAATAATATTAAAA
42335520 ATAATTTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
19 4 0.12
20 2 0.06
21 15 0.44
22 13 0.38
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (20 bp):
TTAAAAATAATATTAAAATT
Found at i:42335518 original size:11 final size:11
Alignment explanation
Indices: 42335484--42335526 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
42335474 TAATATTTAA
42335484 AAAAATAATATT
1 AAAAATAAT-TT
*
42335496 CAAAAT--TTT
1 AAAAATAATTT
42335505 AAAAATAATTT
1 AAAAATAATTT
42335516 AAAAATAATTT
1 AAAAATAATTT
42335527 TTAAAATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
9 7 0.26
10 1 0.04
11 14 0.52
12 5 0.19
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (11 bp):
AAAAATAATTT
Done.