Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008041.1 Hibiscus syriacus cultivar Beakdansim tig00110528_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 4970990
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 21
Found at i:1135290 original size:132 final size:133
Alignment explanation
Indices: 1135048--1135307 Score: 416
Period size: 132 Copynumber: 2.0 Consensus size: 133
1135038 TTTAGCACTT
* * **
1135048 AGTGCCCTATCTGGAAATTCATACACTTAGTATGATTTCCTTATATTTTAGCACACTTAGTGCCC
1 AGTGCCCTATCTAGAAATTCATACACTTAGTATGATTTCCTTATAGTTTAGCACACAAAGTGCCC
*
1135113 TATCTGGAAATTCATACACTTAGTATGATTTCCTTATCAAATTAG-CACTTAGTG-CCTATCACA
66 TATCTGGAAATTCATACACTTAGTATGATTTCATTATCAAATTAGACACTTAGTGCCCTATCACA
1135176 CGA
131 CGA
1135179 AGTGCCCTATCTAGAAATTCATACACTTAGTATGATTTCCTTATCAGTTTAGCACACAAAGTGCC
1 AGTGCCCTATCTAGAAATTCATACACTTAGTATGATTTCCTTAT-AGTTTAGCACACAAAGTGCC
* **
1135244 CTATCTGGAAATTCATACACTTAGTATTATTTCATTATCATTTTAGCACACTTAGTGCCCTATC
65 CTATCTGGAAATTCATACACTTAGTATGATTTCATTATCAAATTAG-ACACTTAGTGCCCTATC
1135308 TGGAAATTCA
Statistics
Matches: 117, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
131 43 0.37
132 59 0.50
134 9 0.08
135 6 0.05
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.36
Consensus pattern (133 bp):
AGTGCCCTATCTAGAAATTCATACACTTAGTATGATTTCCTTATAGTTTAGCACACAAAGTGCCC
TATCTGGAAATTCATACACTTAGTATGATTTCATTATCAAATTAGACACTTAGTGCCCTATCACA
CGA
Found at i:1136015 original size:95 final size:95
Alignment explanation
Indices: 1135852--1136073 Score: 281
Period size: 95 Copynumber: 2.4 Consensus size: 95
1135842 TGGCTCTTCA
* * * * *
1135852 GTATCGATACCC-CTACCATGGTATCGAAACTACCCTATTGTGGTATTGATACCCCCTTCTGGTA
1 GTATCGATACCCTC-ACCATGGTATCGATACTACCATATAGTGGTATCGATACCCCCTTCCGGTA
* * *
1135916 TCGATACCAAACTTAGCTTCGATGTGGCTTG
65 TCGATACCAAAATTAGCTTCGATGTGACCTG
* *
1135947 GTATCGATACCCTCACCATGGTATCGATACTACTATACTAG-GGTATCGATACCCCTTTCCGGTA
1 GTATCGATACCCTCACCATGGTATCGATACTACCATA-TAGTGGTATCGATACCCCCTTCCGGTA
* *
1136011 TCGATACCAAAATTAGGTTCGATGTTACCTG
65 TCGATACCAAAATTAGCTTCGATGTGACCTG
*
1136042 GTATCAATACCCTCACCATGGTAT--ATACTACC
1 GTATCGATACCCTCACCATGGTATCGATACTACC
1136074 TCATCAGTAT
Statistics
Matches: 111, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
93 7 0.06
95 101 0.91
96 3 0.03
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.31
Consensus pattern (95 bp):
GTATCGATACCCTCACCATGGTATCGATACTACCATATAGTGGTATCGATACCCCCTTCCGGTAT
CGATACCAAAATTAGCTTCGATGTGACCTG
Found at i:1140355 original size:95 final size:95
Alignment explanation
Indices: 1140179--1140357 Score: 236
Period size: 95 Copynumber: 1.9 Consensus size: 95
1140169 CTACTGAGTT
* * *
1140179 TTTTTCCTTTCCATTTTGTACCAACAGTACCAAGAACACAATTCTAAGATGAAGTTTTCCTTTGG
1 TTTTTCCTTTACATTTTGTACCAACAGTACCAAGAACACAAGTCTAAGACGAAGTTTTCCTTTGG
*
1140244 GTTTCTTTAGCATGTTGGTTAGTGTTTAGC
66 GTTTCTCTAGCATGTTGGTTAGTGTTTAGC
* * *
1140274 TTTTTCCTTTACATTTTGTA-TAGAC-GATACCAAGAACACAAGTCTAGGACGAATTTTTCCTTT
1 TTTTTCCTTTACATTTTGTACCA-ACAG-TACCAAGAACACAAGTCTAAGACGAAGTTTTCCTTT
* * *
1140337 TGGTTTCTCTGGCGTGTTGGT
64 GGGTTTCTCTAGCATGTTGGT
1140358 ATCCATTTAT
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
94 2 0.03
95 70 0.97
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.42
Consensus pattern (95 bp):
TTTTTCCTTTACATTTTGTACCAACAGTACCAAGAACACAAGTCTAAGACGAAGTTTTCCTTTGG
GTTTCTCTAGCATGTTGGTTAGTGTTTAGC
Found at i:1141110 original size:57 final size:58
Alignment explanation
Indices: 1141005--1141580 Score: 395
Period size: 57 Copynumber: 9.9 Consensus size: 58
1140995 TAAATCAATA
*
1141005 GGAAATTCATACAATTAGTATGATTTCCTTATTA-TTTAGCACAC-TAGTGCCCTATCT
1 GGAAATTCATAC-ATTAGTATGATTTCCTTATCATTTTAGCACACTTAGTGCCCTATCT
* *
1141062 AGAAATTCATACA-TAGTATAATTTCCTTATCATTTTAGCACACTTAGTGCCCTATCT
1 GGAAATTCATACATTAGTATGATTTCCTTATCATTTTAGCACACTTAGTGCCCTATCT
* *
1141119 GGAAATTCATAC---ACT-TGA-TTCCTTAACATTTTAGCACACTTAGTGCCCTATCT
1 GGAAATTCATACATTAGTATGATTTCCTTATCATTTTAGCACACTTAGTGCCCTATCT
** *
1141172 GGAAATTCATACACTTAGTATGATTTCCTTATCAAATTAGCACACTTAGTGCCCTATCACA
1 GGAAATTCATACA-TTAGTATGATTTCCTTATCATTTTAGCACACTTAGTGCCCTAT--CT
* * * * * * ** * * * *
1141233 CGAAGTGC--CCTATCTAGAATTCATACTTAGTATGATTCCTTATTAGTTAGCAC--ACGAAGTG
1 GGAAATTCATAC-AT-TAGTA-TGAT--TTCCT-T-A-TCATT-TTAG-CA-CACTTA-G-TG-C
* *
1141294 CC-CTAT
52 CCTATCT
* * * ** * *
1141300 CTGGAAATTCTACACTTAGTATTATTTCATTAT-ATTTTAGCACACTTAGTGCCCTATCT
1 -GGAAATTCATACA-TTAGTATGATTTCCTTATCATTTTAGCACACTTAGTGCCCTATCT
* **
1141359 GGAAATTCATACACTTAGTATGATTTCCTTATCAATTTAGCAC-CGAAGTGCCC-ATCT
1 GGAAATTCATACA-TTAGTATGATTTCCTTATCATTTTAGCACACTTAGTGCCCTATCT
* * * * ***
1141416 GGAAATTCATACACTTAATATAATTTCCTTATCAGTTTA-AACAAGAAGTGCCCTATCT
1 GGAAATTCATACA-TTAGTATGATTTCCTTATCATTTTAGCACACTTAGTGCCCTATCT
*
1141474 GGAAATTCATACACTTAGTATGATTTCC-TATCATTTTAG--CA-TGAAGTGCCCTATCT
1 GGAAATTCATACA-TTAGTATGATTTCCTTATCATTTTAGCACACT-TAGTGCCCTATCT
* *
1141530 GAAAATTCATA-ACTTAGTATGATTTCCTTATTATTTTAGCACACTTAGTGC
1 GGAAATTCATACA-TTAGTATGATTTCCTTATCATTTTAGCACACTTAGTGC
1141581 TATTTGGTAA
Statistics
Matches: 411, Mismatches: 68, Indels: 79
0.74 0.12 0.14
Matches are distributed among these distances:
53 46 0.11
54 2 0.00
55 35 0.09
56 48 0.12
57 95 0.23
58 75 0.18
59 48 0.12
60 7 0.02
61 14 0.03
62 2 0.00
63 4 0.01
64 2 0.00
65 2 0.00
66 5 0.01
67 5 0.01
68 7 0.02
69 10 0.02
70 4 0.01
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.37
Consensus pattern (58 bp):
GGAAATTCATACATTAGTATGATTTCCTTATCATTTTAGCACACTTAGTGCCCTATCT
Found at i:1141162 original size:53 final size:55
Alignment explanation
Indices: 1141023--1141229 Score: 269
Period size: 53 Copynumber: 3.7 Consensus size: 55
1141013 ATACAATTAG
* * *
1141023 TATGATTTCCTTATTA-TTTAGCACAC-TAGTGCCCTATCTAGAAATTCATACATAG
1 TATGATTTCCTTATCATTTTAGCACACTTAGTGCCCTATCTGGAAATTCATAC--AC
*
1141078 TATAATTTCCTTATCATTTTAGCACACTTAGTGCCCTATCTGGAAATTCATACAC
1 TATGATTTCCTTATCATTTTAGCACACTTAGTGCCCTATCTGGAAATTCATACAC
*
1141133 T-TGA-TTCCTTAACATTTTAGCACACTTAGTGCCCTATCTGGAAATTCATACAC
1 TATGATTTCCTTATCATTTTAGCACACTTAGTGCCCTATCTGGAAATTCATACAC
**
1141186 TTAGTATGATTTCCTTATCAAATTAGCACACTTAGTGCCCTATC
1 ----TATGATTTCCTTATCATTTTAGCACACTTAGTGCCCTATC
1141230 ACACGAAGTG
Statistics
Matches: 135, Mismatches: 9, Indels: 12
0.87 0.06 0.08
Matches are distributed among these distances:
53 48 0.36
54 2 0.01
55 16 0.12
56 10 0.07
57 25 0.19
58 3 0.02
59 31 0.23
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.38
Consensus pattern (55 bp):
TATGATTTCCTTATCATTTTAGCACACTTAGTGCCCTATCTGGAAATTCATACAC
Found at i:1141297 original size:71 final size:75
Alignment explanation
Indices: 1141160--1141300 Score: 200
Period size: 71 Copynumber: 1.9 Consensus size: 75
1141150 TAGCACACTT
* **
1141160 AGTGCCCTATCTGGAAATTCATACACTTAGTATGATTTCCTTATCAAATTAGCACACTTAGTGCC
1 AGTGCCCTATCTAGAAATTCATA-ACTTAGTATGATTTCCTTATCAAATTAGCACACGAAGTGCC
1141225 CTATCACACGA
65 CTATCACACGA
* *
1141236 AGTGCCCTATCTAG-AATTCAT-ACTTAGTATGA-TTCCTTAT-TAGTTAGCACACGAAGTGCCC
1 AGTGCCCTATCTAGAAATTCATAACTTAGTATGATTTCCTTATCAAATTAGCACACGAAGTGCCC
1141297 TATC
66 TATC
1141301 TGGAAATTCT
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
71 21 0.35
72 8 0.13
73 11 0.18
75 7 0.12
76 13 0.22
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (75 bp):
AGTGCCCTATCTAGAAATTCATAACTTAGTATGATTTCCTTATCAAATTAGCACACGAAGTGCCC
TATCACACGA
Found at i:1141321 original size:129 final size:128
Alignment explanation
Indices: 1141107--1141357 Score: 346
Period size: 129 Copynumber: 2.0 Consensus size: 128
1141097 TAGCACACTT
* * **
1141107 AGTGCCCTATCTGGAAATTCATACACTTGATTCCTTAACATTTTAGCACACTTAGTGCCCTATCT
1 AGTGCCCTATCTAGAAATTCATACACTTGATTCCTTAACATGTTAGCACACGAAGTGCCCTATCT
*
1141172 GGAAATTCATACACTTAGTATGATTTCCTTATCAAATTAGCACACTTAGTGCCCTATCACACGA
66 GGAAATTCATACACTTAGTATGATTTCATTAT-AAATTAGCACACTTAGTGCCCTATCACACGA
* **
1141236 AGTGCCCTATCTAG-AATTCATACTTAGTATGATTCCTTATTA-GTTAGCACACGAAGTGCCCTA
1 AGTGCCCTATCTAGAAATTCATAC--ACT-TGATTCCTTAACATGTTAGCACACGAAGTGCCCTA
* **
1141299 TCTGGAAATTC-TACACTTAGTATTATTTCATTATATTTTAGCACACTTAGTGCCCTATC
63 TCTGGAAATTCATACACTTAGTATGATTTCATTATAAATTAGCACACTTAGTGCCCTATC
1141358 TGGAAATTCA
Statistics
Matches: 108, Mismatches: 11, Indels: 7
0.86 0.09 0.06
Matches are distributed among these distances:
128 32 0.30
129 34 0.31
130 31 0.29
131 11 0.10
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (128 bp):
AGTGCCCTATCTAGAAATTCATACACTTGATTCCTTAACATGTTAGCACACGAAGTGCCCTATCT
GGAAATTCATACACTTAGTATGATTTCATTATAAATTAGCACACTTAGTGCCCTATCACACGA
Found at i:1141340 original size:240 final size:242
Alignment explanation
Indices: 1141008--1141449 Score: 655
Period size: 240 Copynumber: 1.8 Consensus size: 242
1140998 ATCAATAGGA
* *
1141008 AATTCATACAATTAGTATGATTTCCTTATTATTTAGCACACTAGTGCCCTATCTAGAAATTCATA
1 AATTCATAC-ATTAGTATGATTTCCTTATTAGTTAGCACACAAGTGCCCTATCTAGAAATTCATA
*
1141073 CATAGTATAATTTCCTTATCATTTTAGCACACTTAGTGCCCTATCTGGAAATTCATACAC-T-TG
65 CATAGTATAATTTCATTATCATTTTAGCACACTTAGTGCCCTATCTGGAAATTCATACACTTATG
* ** * *
1141136 A-TTCCTTAACATTTTAGCACACTTAGTGCCCTATCTGGAAATTCATACACTTAGTATGATTTCC
130 ATTTCCTTAACAATTTAGCAC-CGAAGTGCCC-ATCTGGAAATTCATACACTTAATATAATTTCC
1141200 TTATCAAATTAGCACACTTAGTGCCCTATCACACGAAGTGCCCTATCTAG
193 TTATCAAATTAGCACACTTAGTGCCCTATCACACGAAGTGCCCTATCTAG
*
1141250 AATTCATAC-TTAGTATGA-TTCCTTATTAGTTAGCACACGAAGTGCCCTATCTGGAAATTC-TA
1 AATTCATACATTAGTATGATTTCCTTATTAGTTAGCACAC-AAGTGCCCTATCTAGAAATTCATA
*
1141312 CACTTAGTATTATTTCATTAT-ATTTTAGCACACTTAGTGCCCTATCTGGAAATTCATACACTTA
65 CA--TAGTATAATTTCATTATCATTTTAGCACACTTAGTGCCCTATCTGGAAATTCATACAC-T-
*
1141376 GTATGATTTCCTTATCAATTTAGCACCGAAGTGCCCATCTGGAAATTCATACACTTAATATAATT
126 -TATGATTTCCTTAACAATTTAGCACCGAAGTGCCCATCTGGAAATTCATACACTTAATATAATT
1141441 TCCTTATCA
190 TCCTTATCA
1141450 GTTTAAACAA
Statistics
Matches: 180, Mismatches: 11, Indels: 16
0.87 0.05 0.08
Matches are distributed among these distances:
239 23 0.13
240 68 0.38
241 15 0.08
242 9 0.05
244 37 0.21
245 11 0.06
246 17 0.09
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.37
Consensus pattern (242 bp):
AATTCATACATTAGTATGATTTCCTTATTAGTTAGCACACAAGTGCCCTATCTAGAAATTCATAC
ATAGTATAATTTCATTATCATTTTAGCACACTTAGTGCCCTATCTGGAAATTCATACACTTATGA
TTTCCTTAACAATTTAGCACCGAAGTGCCCATCTGGAAATTCATACACTTAATATAATTTCCTTA
TCAAATTAGCACACTTAGTGCCCTATCACACGAAGTGCCCTATCTAG
Found at i:1141364 original size:187 final size:182
Alignment explanation
Indices: 1141050--1141580 Score: 571
Period size: 187 Copynumber: 3.0 Consensus size: 182
1141040 TTAGCACACT
* **
1141050 AGTGCCCTATCTAGAAATTCATACATAGTATAATTTCCTTATCATTTTAGCACACTTAGTGCCCT
1 AGTGCCCTATCTAG-AATTCATAC-TAGTAT-A-TTCCTTATCA-GTTAGCACACGAAGTGCCCT
** *
1141115 ATCTGGAAATTCATACACTT-G-ATTCCTT-A-ACATTTTAGCACACTTAGTGCCCTATCTGGAA
61 ATCTGGAAATTCATACACTTAGTATTATTTCATATATTTTAGCACACTTAGTGCCCTATCTGGAA
*
1141176 ATTCATACACTTAGTATGATTTCCTTATCAAATTAGCACACTTAGTGCCCTATCACACGA
126 ATTCATACACTTAGTATGATTTCCTTATCAATTTAGCACACTTAGTGCCC-AT--CACGA
*
1141236 AGTGCCCTATCTAGAATTCATACTTAGTATGATTCCTTATTAGTTAGCACACGAAGTGCCCTATC
1 AGTGCCCTATCTAGAATTCATAC-TAGTAT-ATTCCTTATCAGTTAGCACACGAAGTGCCCTATC
1141301 TGGAAATTC-TACACTTAGTATTATTTCATTATATTTTAGCACACTTAGTGCCCTATCTGGAAAT
64 TGGAAATTCATACACTTAGTATTATTTCA-TATATTTTAGCACACTTAGTGCCCTATCTGGAAAT
** **
1141365 TCATACACTTAGTATGATTTCCTTATCAATTTAGCAC-CGAAGTGCCCATCTGGA
128 TCATACACTTAGTATGATTTCCTTATCAATTTAGCACACTTAGTGCCCATCACGA
* * * * * * *
1141419 AAT--TC-A--TACACTTAATA-TA--AT-TTCCTTATCAGTTTA-AACAAGAAGTGCCCTATCT
1 AGTGCCCTATCTAGAATTCATACTAGTATATTCCTTATCAG-TTAGCACACGAAGTGCCCTATCT
* * * *
1141474 GGAAATTCATACACTTAGTATGATTTCCTATCATTTTAG--CA-TGAAGTGCCCTATCTGAAAAT
65 GGAAATTCATACACTTAGTATTATTTCATAT-ATTTTAGCACACT-TAGTGCCCTATCTGGAAAT
* *
1141536 TCATA-ACTTAGTATGATTTCCTTATTATTTTAGCACACTTAGTGC
128 TCATACACTTAGTATGATTTCCTTATCAATTTAGCACACTTAGTGC
1141581 TATTTGGTAA
Statistics
Matches: 305, Mismatches: 30, Indels: 35
0.82 0.08 0.09
Matches are distributed among these distances:
170 30 0.10
171 30 0.10
172 38 0.12
173 27 0.09
174 2 0.01
176 2 0.01
178 8 0.03
180 1 0.00
181 1 0.00
182 7 0.02
183 35 0.11
184 14 0.05
185 19 0.06
186 22 0.07
187 69 0.23
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.36
Consensus pattern (182 bp):
AGTGCCCTATCTAGAATTCATACTAGTATATTCCTTATCAGTTAGCACACGAAGTGCCCTATCTG
GAAATTCATACACTTAGTATTATTTCATATATTTTAGCACACTTAGTGCCCTATCTGGAAATTCA
TACACTTAGTATGATTTCCTTATCAATTTAGCACACTTAGTGCCCATCACGA
Found at i:1141376 original size:58 final size:59
Alignment explanation
Indices: 1141229--1141573 Score: 448
Period size: 57 Copynumber: 6.1 Consensus size: 59
1141219 AGTGCCCTAT
* * *
1141229 CACACGAAGTGCCCTATCTAG-AATTCAT--ACTTAGTATGA-TTCCTTATTA-GTTAG
1 CACACGAAGTGCCCTATCTGGAAATTCATACACTTAGTATGATTTCCTTATCATTTTAG
* *
1141283 CACACGAAGTGCCCTATCTGGAAATTC-TACACTTAGTATTATTTCATTAT-ATTTTAG
1 CACACGAAGTGCCCTATCTGGAAATTCATACACTTAGTATGATTTCCTTATCATTTTAG
** *
1141340 CACACTTAGTGCCCTATCTGGAAATTCATACACTTAGTATGATTTCCTTATCAATTTAG
1 CACACGAAGTGCCCTATCTGGAAATTCATACACTTAGTATGATTTCCTTATCATTTTAG
* * *
1141399 CAC-CGAAGTGCCC-ATCTGGAAATTCATACACTTAATATAATTTCCTTATCAGTTTA-
1 CACACGAAGTGCCCTATCTGGAAATTCATACACTTAGTATGATTTCCTTATCATTTTAG
* *
1141455 AACAAGAAGTGCCCTATCTGGAAATTCATACACTTAGTATGATTTCC-TATCATTTTAG
1 CACACGAAGTGCCCTATCTGGAAATTCATACACTTAGTATGATTTCCTTATCATTTTAG
* * *
1141513 --CATGAAGTGCCCTATCTGAAAATTCATA-ACTTAGTATGATTTCCTTATTATTTTAG
1 CACACGAAGTGCCCTATCTGGAAATTCATACACTTAGTATGATTTCCTTATCATTTTAG
1141569 CACAC
1 CACAC
1141574 TTAGTGCTAT
Statistics
Matches: 255, Mismatches: 23, Indels: 22
0.85 0.08 0.07
Matches are distributed among these distances:
54 21 0.08
55 21 0.08
56 49 0.19
57 94 0.37
58 61 0.24
59 9 0.04
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (59 bp):
CACACGAAGTGCCCTATCTGGAAATTCATACACTTAGTATGATTTCCTTATCATTTTAG
Found at i:1141431 original size:115 final size:116
Alignment explanation
Indices: 1141236--1141580 Score: 451
Period size: 115 Copynumber: 3.0 Consensus size: 116
1141226 TATCACACGA
* * *
1141236 AGTGCCCTATCTAG-AATTCAT--ACTTAGTATGA-TTCCTTAT-TAGTTAGCACACGAAGTGCC
1 AGTGCCCTATCTGGAAATTCATACACTTAGTATGATTTCCTTATCAATTTAGCAC-CGAAGTGCC
* *
1141296 CTATCTGGAAATTC-TACACTTAGTATTATTTCATTATATTTTAGCACACTT
65 CTATCTGGAAATTCATACACTTAGTATAATTTCCTTATATTTTAGCACACTT
1141347 AGTGCCCTATCTGGAAATTCATACACTTAGTATGATTTCCTTATCAATTTAGCACCGAAGTGCCC
1 AGTGCCCTATCTGGAAATTCATACACTTAGTATGATTTCCTTATCAATTTAGCACCGAAGTGCCC
* * * ***
1141412 -ATCTGGAAATTCATACACTTAATATAATTTCCTTATCAGTTTA-AACAAGA
66 TATCTGGAAATTCATACACTTAGTATAATTTCCTTAT-ATTTTAGCACACTT
* *
1141462 AGTGCCCTATCTGGAAATTCATACACTTAGTATGATTTCC-TATCATTTTAGCA-TGAAGTGCCC
1 AGTGCCCTATCTGGAAATTCATACACTTAGTATGATTTCCTTATCAATTTAGCACCGAAGTGCCC
* *
1141525 TATCTGAAAATTCATA-ACTTAGTATGATTTCCTTATTATTTTAGCACACTT
66 TATCTGGAAATTCATACACTTAGTATAATTTCCTTA-TATTTTAGCACACTT
1141576 AGTGC
1 AGTGC
1141581 TATTTGGTAA
Statistics
Matches: 203, Mismatches: 21, Indels: 17
0.84 0.09 0.07
Matches are distributed among these distances:
111 13 0.06
112 7 0.03
113 31 0.15
114 58 0.29
115 81 0.40
116 13 0.06
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (116 bp):
AGTGCCCTATCTGGAAATTCATACACTTAGTATGATTTCCTTATCAATTTAGCACCGAAGTGCCC
TATCTGGAAATTCATACACTTAGTATAATTTCCTTATATTTTAGCACACTT
Found at i:1143332 original size:13 final size:13
Alignment explanation
Indices: 1143314--1143340 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1143304 ATTAGGCATT
1143314 TATTCTTCATGTG
1 TATTCTTCATGTG
1143327 TATTCTTCATGTG
1 TATTCTTCATGTG
1143340 T
1 T
1143341 CTGGGATTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.56
Consensus pattern (13 bp):
TATTCTTCATGTG
Found at i:1146294 original size:95 final size:95
Alignment explanation
Indices: 1146168--1146346 Score: 254
Period size: 95 Copynumber: 1.9 Consensus size: 95
1146158 CTACTGAGTT
* * *
1146168 TTTTTCCTTTCCATTTTGTACCAACAGTACCAAGAACACAATTCTAAGATGAAGTTTTCCTTTGG
1 TTTTTCCTTTACATTTTGTACCAACAGTACCAAGAACACAAGTCTAAGACGAAGTTTTCCTTTGG
1146233 GTTTCTCTAGCATGTTGGTTAGTGTTTAGC
66 GTTTCTCTAGCATGTTGGTTAGTGTTTAGC
* * *
1146263 TTTTTCCTTTACATTTTGTA-TAGAC-GATACCAAGAACACAAGTCTAGGGCGAAGTTTTCCTTT
1 TTTTTCCTTTACATTTTGTACCA-ACAG-TACCAAGAACACAAGTCTAAGACGAAGTTTTCCTTT
* *
1146326 TGGTTTCTCTGGCATGTTGGT
64 GGGTTTCTCTAGCATGTTGGT
1146347 ATCCATTTAT
Statistics
Matches: 74, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
94 2 0.03
95 72 0.97
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.41
Consensus pattern (95 bp):
TTTTTCCTTTACATTTTGTACCAACAGTACCAAGAACACAAGTCTAAGACGAAGTTTTCCTTTGG
GTTTCTCTAGCATGTTGGTTAGTGTTTAGC
Found at i:1147168 original size:57 final size:57
Alignment explanation
Indices: 1146996--1147272 Score: 389
Period size: 57 Copynumber: 5.0 Consensus size: 57
1146986 AAATTCAATA
1146996 GGAAATTCATACAATTAGTATGA-TTCCTTAT--TTTAGCACACTTAGTGCCCTATCT
1 GGAAATTCATAC-ATTAGTATGATTTCCTTATCATTTAGCACACTTAGTGCCCTATCT
* *
1147051 AGAAATTCATACACTTAGTATAATTTCCTTATCATTTTAGCACACTTAGTGCCCTATCT
1 GGAAATTCATACA-TTAGTATGATTTCCTTATCA-TTTAGCACACTTAGTGCCCTATCT
1147110 GGAAATTCATACATTAGTATGATTTCCTTATCATTTAGCACACTTAGTGCCCTATCT
1 GGAAATTCATACATTAGTATGATTTCCTTATCATTTAGCACACTTAGTGCCCTATCT
* *
1147167 GGAAATTCACAC-TTAGTATGA-TTCCTTAT--TTTAGCACACTTAGTGCCCAATCT
1 GGAAATTCATACATTAGTATGATTTCCTTATCATTTAGCACACTTAGTGCCCTATCT
1147220 GGAAA-TCATACACTTAGTATGATTT-CTTATCAGTTTAG--CAC-TAGTGCCCTATC
1 GGAAATTCATACA-TTAGTATGATTTCCTTATCA-TTTAGCACACTTAGTGCCCTATC
1147273 ACACGAAGTG
Statistics
Matches: 203, Mismatches: 8, Indels: 23
0.87 0.03 0.10
Matches are distributed among these distances:
52 5 0.02
53 28 0.14
54 26 0.13
55 32 0.16
56 17 0.08
57 40 0.20
58 19 0.09
59 36 0.18
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (57 bp):
GGAAATTCATACATTAGTATGATTTCCTTATCATTTAGCACACTTAGTGCCCTATCT
Found at i:1147237 original size:110 final size:115
Alignment explanation
Indices: 1146996--1147272 Score: 400
Period size: 110 Copynumber: 2.5 Consensus size: 115
1146986 AAATTCAATA
1146996 GGAAATTCATACAATTAGTATGA-TTCCTTAT--TTTAGCACACTTAGTGCCCTATCTAGAAATT
1 GGAAATTCATAC-ATTAGTATGATTTCCTTATCATTTAGCACACTTAGTGCCCTATCTAGAAATT
*
1147058 CATACACTTAGTATAATTTCCTTATCATTTTAGCACACTTAGTGCCCTATCT
65 CA-ACACTTAGTATAATTTCCTTATCATTTTAGCACACTTAGTGCCCAATCT
*
1147110 GGAAATTCATACATTAGTATGATTTCCTTATCATTTAGCACACTTAGTGCCCTATCTGGAAATTC
1 GGAAATTCATACATTAGTATGATTTCCTTATCATTTAGCACACTTAGTGCCCTATCTAGAAATTC
*
1147175 -ACACTTAGTATGA-TTCC-T-T-ATTTTAGCACACTTAGTGCCCAATCT
66 AACACTTAGTATAATTTCCTTATCATTTTAGCACACTTAGTGCCCAATCT
1147220 GGAAA-TCATACACTTAGTATGATTT-CTTATCAGTTTAG--CAC-TAGTGCCCTATC
1 GGAAATTCATACA-TTAGTATGATTTCCTTATCA-TTTAGCACACTTAGTGCCCTATC
1147273 ACACGAAGTG
Statistics
Matches: 155, Mismatches: 3, Indels: 17
0.89 0.02 0.10
Matches are distributed among these distances:
107 12 0.08
108 3 0.02
109 14 0.09
110 47 0.30
111 1 0.01
112 1 0.01
113 14 0.09
114 32 0.21
116 31 0.20
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (115 bp):
GGAAATTCATACATTAGTATGATTTCCTTATCATTTAGCACACTTAGTGCCCTATCTAGAAATTC
AACACTTAGTATAATTTCCTTATCATTTTAGCACACTTAGTGCCCAATCT
Found at i:1147379 original size:129 final size:126
Alignment explanation
Indices: 1147155--1147404 Score: 353
Period size: 129 Copynumber: 2.0 Consensus size: 126
1147145 TAGCACACTT
* **
1147155 AGTGCCCTATCTGGAAATTCACACTTAGTATGATTCCTTATTTTAGCACACTTAGTGCCCAATCT
1 AGTGCCCTATCTAGAAATTCACACTTAGTATGATTCCTTATTTTAGCACACGAAGTGCCCAATCT
1147220 GGAAATCATACACTTAGTATGATTTCTTATCAGTTTAG-CAC-TAGTGCCCTATCACACGA
66 GGAAATCATACACTTAGTATGATTTCTTATCAGTTTAGACACTTAGTGCCCTATCACACGA
1147279 AGTGCCCTATCTAGAAATTCATACACTTAGTATGATTTCCTTATTATTTAGCACACGAAGTGCCC
1 AGTGCCCTATCTAGAAATTC--ACACTTAGTATGA-TTCCTTA-T-TTTAGCACACGAAGTGCCC
* * * *
1147344 TATCTGGAATTCATACACTTAGTATTA-TTCATTATCATTTTAGCACACTTAGTGCCCTATC
61 AATCTGGAAATCATACACTTAGTATGATTTC-TTATCAGTTTAG-ACACTTAGTGCCCTATC
1147405 TGGAAATTCA
Statistics
Matches: 110, Mismatches: 7, Indels: 10
0.87 0.06 0.08
Matches are distributed among these distances:
124 19 0.17
126 13 0.12
127 7 0.06
128 4 0.04
129 52 0.47
131 3 0.03
132 12 0.11
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (126 bp):
AGTGCCCTATCTAGAAATTCACACTTAGTATGATTCCTTATTTTAGCACACGAAGTGCCCAATCT
GGAAATCATACACTTAGTATGATTTCTTATCAGTTTAGACACTTAGTGCCCTATCACACGA
Found at i:1147386 original size:57 final size:57
Alignment explanation
Indices: 1147272--1147431 Score: 225
Period size: 57 Copynumber: 2.8 Consensus size: 57
1147262 AGTGCCCTAT
* * *
1147272 CACACGAAGTGCCCTATCTAGAAATTCATACACTTAGTATGATTTCCTTATTATTTAG
1 CACACGAAGTGCCCTATCT-GGAATTCATACACTTAGTATGATTTCATTATCATTTAG
*
1147330 CACACGAAGTGCCCTATCTGGAATTCATACACTTAGTATTA-TTCATTATCATTTTAG
1 CACACGAAGTGCCCTATCTGGAATTCATACACTTAGTATGATTTCATTATCA-TTTAG
**
1147387 CACACTTAGTGCCCTATCTGGAAATTCATACAC-TAGTATGATTTC
1 CACACGAAGTGCCCTATCTGG-AATTCATACACTTAGTATGATTTC
1147432 CTTTTGAGCT
Statistics
Matches: 92, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
56 8 0.09
57 51 0.55
58 33 0.36
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.36
Consensus pattern (57 bp):
CACACGAAGTGCCCTATCTGGAATTCATACACTTAGTATGATTTCATTATCATTTAG
Found at i:1155796 original size:20 final size:20
Alignment explanation
Indices: 1155773--1155843 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
1155763 ACAAGTTCCA
1155773 AAATCGCAACAAGAATTTGT
1 AAATCGCAACAAGAATTTGT
* *
1155793 AAATCGCAATATAG--TTTCT
1 AAATCGCAACA-AGAATTTGT
**
1155812 AAAATCGCAACGCGAATTTGT
1 -AAATCGCAACAAGAATTTGT
1155833 AAATCGCAACA
1 AAATCGCAACA
1155844 CAGTTTCCAA
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
19 5 0.12
20 29 0.73
21 6 0.15
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.25
Consensus pattern (20 bp):
AAATCGCAACAAGAATTTGT
Found at i:1155816 original size:40 final size:40
Alignment explanation
Indices: 1155760--1155859 Score: 139
Period size: 40 Copynumber: 2.5 Consensus size: 40
1155750 CTAATTTCGT
1155760 AACACAAG-TTCCAAAATCGCAACAAGAATTTGTAAATCGC
1 AACAC-AGTTTCCAAAATCGCAACAAGAATTTGTAAATCGC
* * * **
1155800 AATATAGTTTCTAAAATCGCAACGCGAATTTGTAAATCGC
1 AACACAGTTTCCAAAATCGCAACAAGAATTTGTAAATCGC
1155840 AACACAGTTTCCAAAATCGC
1 AACACAGTTTCCAAAATCGC
1155860 GTTGCGATAG
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
39 2 0.04
40 49 0.96
ACGTcount: A:0.41, C:0.22, G:0.13, T:0.24
Consensus pattern (40 bp):
AACACAGTTTCCAAAATCGCAACAAGAATTTGTAAATCGC
Found at i:1155856 original size:20 final size:20
Alignment explanation
Indices: 1155793--1155859 Score: 55
Period size: 20 Copynumber: 3.4 Consensus size: 20
1155783 AAGAATTTGT
* * *
1155793 AAATCGCAATATAGTTTCTA
1 AAATCGCAACACAGTTTCCA
* * **
1155813 AAATCGCAACGCGAATTT-GT
1 AAATCGCAACAC-AGTTTCCA
1155833 AAATCGCAACACAGTTTCCA
1 AAATCGCAACACAGTTTCCA
1155853 AAATCGC
1 AAATCGC
1155860 GTTGCGATAG
Statistics
Matches: 35, Mismatches: 10, Indels: 4
0.71 0.20 0.08
Matches are distributed among these distances:
19 4 0.11
20 27 0.77
21 4 0.11
ACGTcount: A:0.39, C:0.22, G:0.13, T:0.25
Consensus pattern (20 bp):
AAATCGCAACACAGTTTCCA
Found at i:1155966 original size:75 final size:75
Alignment explanation
Indices: 1155852--1156545 Score: 220
Period size: 77 Copynumber: 9.1 Consensus size: 75
1155842 CACAGTTTCC
* *
1155852 AAAATCGCGTTGCGATAGTACTGTTTACCTATATGGTAATTAGCGTTGCGAATTTAAAAATCGCG
1 AAAATCGCGTTACGATAATACTGTTTACCTATATGGTAATTAGCGTTGCGAATTTAAAAATCGCG
1155917 TTGCGAATTG
66 TTGCGAATTG
* * * *
1155927 AAAATCGTGTTACGATAATA-TGTTTACCTACGTCT-GTAATTGGCGTTGCGAATTTGAAAATCG
1 AAAATCGCGTTACGATAATACTGTTTACCTA--TATGGTAATTAGCGTTGCGAATTTAAAAATCG
*
1155990 CGTTGTGATAGTACTG
64 CGTTGCGA-A-T--TG
*** * * * * * * * * *
1156006 TTTA-C-C-TACATCGGTAATTAGC-G-TT-GCGATTTTGGGAAAATCGCGTTGCG-ATTTACAT
1 AAAATCGCGT-TA-CGATAA-TA-CTGTTTACCTA-TAT-GGTAATTAGCGTTGCGAATTTA-AA
* ** *
1156064 ATTATCGTTGCG-ATTT
59 AATCGCGTTGCGAATTG
* * * * * *
1156080 AACATTCGCGTTGCGATAACACTATTTACCTATATCGTAATTAGCGTTGCGAATTTGAAAAT--C
1 AA-AATCGCGTTACGATAATACTGTTTACCTATATGGTAATTAGCGTTGCGAATTTAAAAATCGC
1156143 ---GC--ATTG
65 GTTGCGAATTG
* * * *
1156149 -AAATCGTGTTACGATAATACTGTTTACCTACGTCT-GTAATTGGCGTTGCGAATTTGAAAATCG
1 AAAATCGCGTTACGATAATACTGTTTACCTA--TATGGTAATTAGCGTTGCGAATTTAAAAATCG
*
1156212 CGTTGTGATAGTACTG
64 CGTTGCGA-A-T--TG
*** * * * * * * * * *
1156228 TTTA-C-C-TACATCGGTAATTAGC-G-TT-GCGATTTTGGAAAATCGCGTTGCG-ATTTACATA
1 AAAATCGCGT-TA-CGATAA-TA-CTGTTTACCTA-TATGGTAATTAGCGTTGCGAATTTA-AAA
* ** *
1156286 TTATCGTTGCG-ATTT
60 ATCGCGTTGCGAATTG
* * * * * *
1156301 ACACATTCGCGTTGCGATAACACTATTTACCTATATCGATAATTAGCGTTGCGAATTTGAAAATC
1 A-A-AATCGCGTTACGATAATACTGTTTACCTATAT-GGTAATTAGCGTTGCGAATTTAAAAATC
* * *
1156366 GCATTGCAAATTT
63 GCGTTGCGAATTG
* * * * *
1156379 ATAAATCGCGTTGCGATAGTACTATTTACCTATATCGGTAATTAGCGTTGCAAATTTGAAAATCG
1 A-AAATCGCGTTACGATAATACTGTTTACCTATAT-GGTAATTAGCGTTGCGAATTTAAAAATCG
*
1156444 CGTTGCGAATTT
64 CGTTGCGAATTG
* * * * * *
1156456 ATAAATCGCATTGCTATAATACTGTTTACCTATATCGGTTATTAGCGTTGCG-ATTTATATATTC
1 A-AAATCGCGTTACGATAATACTGTTTACCTATAT-GGTAATTAGCGTTGCGAATTTA-AAAATC
*
1156520 GCGTTGCAAATTTG
63 GCGTTGCGAA-TTG
1156534 AAAAATCGCGTT
1 -AAAATCGCGTT
1156546 GCGAATTTAG
Statistics
Matches: 446, Mismatches: 117, Indels: 109
0.66 0.17 0.16
Matches are distributed among these distances:
67 24 0.05
68 26 0.06
69 5 0.01
70 3 0.01
73 3 0.01
74 13 0.03
75 68 0.15
76 35 0.08
77 165 0.37
78 59 0.13
79 39 0.09
80 5 0.01
81 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (75 bp):
AAAATCGCGTTACGATAATACTGTTTACCTATATGGTAATTAGCGTTGCGAATTTAAAAATCGCG
TTGCGAATTG
Found at i:1156023 original size:57 final size:56
Alignment explanation
Indices: 1155914--1156057 Score: 182
Period size: 57 Copynumber: 2.5 Consensus size: 56
1155904 TTTAAAAATC
* * * * *
1155914 GCGTTGCGAA-TTGAAAATCGTGTTACGATAATATGTTTACCTACGTCTGTAATTG
1 GCGTTGCGAATTTGAAAATCGCGTTGCGATAATATGTTTACCTACATCGGTAATTA
* *
1155969 GCGTTGCGAATTTGAAAATCGCGTTGTGATAGTACTGTTTACCTACATCGGTAATTA
1 GCGTTGCGAATTTGAAAATCGCGTTGCGATAATA-TGTTTACCTACATCGGTAATTA
*
1156026 GCGTTGCGATTTTGGGAAAATCGCGTTGCGAT
1 GCGTTGCGAATTT--GAAAATCGCGTTGCGAT
1156058 TTACATATTA
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
55 10 0.13
56 19 0.25
57 31 0.41
59 16 0.21
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (56 bp):
GCGTTGCGAATTTGAAAATCGCGTTGCGATAATATGTTTACCTACATCGGTAATTA
Found at i:1156093 original size:19 final size:20
Alignment explanation
Indices: 1156046--1156096 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
1156036 TTTGGGAAAA
*
1156046 TCGCGTTGCGATTTACATAT
1 TCGCGTTGCGATTTACACAT
**
1156066 TATCGTTGCGATTTA-ACAT
1 TCGCGTTGCGATTTACACAT
1156085 TCGCGTTGCGAT
1 TCGCGTTGCGAT
1156097 AACACTATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 13 0.50
20 13 0.50
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.39
Consensus pattern (20 bp):
TCGCGTTGCGATTTACACAT
Found at i:1156233 original size:57 final size:58
Alignment explanation
Indices: 1156161--1156274 Score: 176
Period size: 57 Copynumber: 2.0 Consensus size: 58
1156151 ATCGTGTTAC
* * *
1156161 GATAATACTGTTTACCTACGTCTGTAATTGGCGTTGCGAATTT-GAAAATCGCGTTGT
1 GATAATACTGTTTACCTACATCGGTAATTAGCGTTGCGAATTTGGAAAATCGCGTTGT
* *
1156218 GATAGTACTGTTTACCTACATCGGTAATTAGCGTTGCGATTTTGGAAAATCGCGTTG
1 GATAATACTGTTTACCTACATCGGTAATTAGCGTTGCGAATTTGGAAAATCGCGTTG
1156275 CGATTTACAT
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
57 38 0.75
58 13 0.25
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.36
Consensus pattern (58 bp):
GATAATACTGTTTACCTACATCGGTAATTAGCGTTGCGAATTTGGAAAATCGCGTTGT
Found at i:1156249 original size:222 final size:222
Alignment explanation
Indices: 1155856--1156376 Score: 884
Period size: 222 Copynumber: 2.3 Consensus size: 222
1155846 GTTTCCAAAA
** * * *
1155856 TCGCGTTGCGATAGTACTGTTTACCTATATGGTAATTAGCGTTGCGAATTTAAAAATCGCGTTGC
1 TCGCGTTGCGATAACACTATTTACCTATATCGTAATTAGCGTTGCGAATTTGAAAAT--C---GC
1155921 GAATTGAAAATCGTGTTACGATAATATGTTTACCTACGTCTGTAATTGGCGTTGCGAATTTGAAA
61 --ATTGAAAATCGTGTTACGATAATATGTTTACCTACGTCTGTAATTGGCGTTGCGAATTTGAAA
1155986 ATCGCGTTGTGATAGTACTGTTTACCTACATCGGTAATTAGCGTTGCGATTTTGGGAAAATCGCG
124 ATCGCGTTGTGATAGTACTGTTTACCTACATCGGTAATTAGCGTTGCGATTTT-GGAAAATCGCG
1156051 TTGCGATTTACATATTATCGTTGCGATTTA-ACAT
188 TTGCGATTTACATATTATCGTTGCGATTTACACAT
1156085 TCGCGTTGCGATAACACTATTTACCTATATCGTAATTAGCGTTGCGAATTTGAAAATCGCATTG-
1 TCGCGTTGCGATAACACTATTTACCTATATCGTAATTAGCGTTGCGAATTTGAAAATCGCATTGA
1156149 AAATCGTGTTACGATAATACTGTTTACCTACGTCTGTAATTGGCGTTGCGAATTTGAAAATCGCG
66 AAATCGTGTTACGATAATA-TGTTTACCTACGTCTGTAATTGGCGTTGCGAATTTGAAAATCGCG
1156214 TTGTGATAGTACTGTTTACCTACATCGGTAATTAGCGTTGCGATTTTGGAAAATCGCGTTGCGAT
130 TTGTGATAGTACTGTTTACCTACATCGGTAATTAGCGTTGCGATTTTGGAAAATCGCGTTGCGAT
1156279 TTACATATTATCGTTGCGATTTACACAT
195 TTACATATTATCGTTGCGATTTACACAT
1156307 TCGCGTTGCGATAACACTATTTACCTATATCGATAATTAGCGTTGCGAATTTGAAAATCGCATTG
1 TCGCGTTGCGATAACACTATTTACCTATATCG-TAATTAGCGTTGCGAATTTGAAAATCGCATTG
*
1156372 CAAAT
65 AAAAT
1156377 TTATAAATCG
Statistics
Matches: 283, Mismatches: 5, Indels: 13
0.94 0.02 0.04
Matches are distributed among these distances:
221 60 0.21
222 132 0.47
223 32 0.11
224 6 0.02
227 1 0.00
229 52 0.18
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.36
Consensus pattern (222 bp):
TCGCGTTGCGATAACACTATTTACCTATATCGTAATTAGCGTTGCGAATTTGAAAATCGCATTGA
AAATCGTGTTACGATAATATGTTTACCTACGTCTGTAATTGGCGTTGCGAATTTGAAAATCGCGT
TGTGATAGTACTGTTTACCTACATCGGTAATTAGCGTTGCGATTTTGGAAAATCGCGTTGCGATT
TACATATTATCGTTGCGATTTACACAT
Found at i:1156295 original size:20 final size:20
Alignment explanation
Indices: 1156269--1156318 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
1156259 TTGGAAAATC
*
1156269 GCGTTGCGATTTACATATTA
1 GCGTTGCGATTTACACATTA
* *
1156289 TCGTTGCGATTTACACATTC
1 GCGTTGCGATTTACACATTA
1156309 GCGTTGCGAT
1 GCGTTGCGAT
1156319 AACACTATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.38
Consensus pattern (20 bp):
GCGTTGCGATTTACACATTA
Found at i:1156396 original size:77 final size:77
Alignment explanation
Indices: 1156307--1156549 Score: 337
Period size: 77 Copynumber: 3.1 Consensus size: 77
1156297 ATTTACACAT
* * *
1156307 TCGCGTTGCGATAACACTATTTACCTATATCGATAATTAGCGTTGCGAATTTGAAAATCGCATTG
1 TCGCGTTGCGATAATACTATTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCGCGTTG
1156372 CAAATTTATAAA
66 CAAATTTATAAA
* *
1156384 TCGCGTTGCGATAGTACTATTTACCTATATCGGTAATTAGCGTTGCAAATTTGAAAATCGCGTTG
1 TCGCGTTGCGATAATACTATTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCGCGTTG
*
1156449 CGAATTTATAAA
66 CAAATTTATAAA
* * * * *
1156461 TCGCATTGCTATAATACTGTTTACCTATATCGGTTATTAGCGTTGCG-ATTT-ATATATTCGCGT
1 TCGCGTTGCGATAATACTATTTACCTATATCGGTAATTAGCGTTGCGAATTTGA-A-AATCGCGT
*
1156524 TGCAAATTTGAAAAA
64 TGCAAATTT-ATAAA
1156539 TCGCGTTGCGA
1 TCGCGTTGCGA
1156550 ATTTAGAAAA
Statistics
Matches: 146, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
75 1 0.01
76 5 0.03
77 127 0.87
78 13 0.09
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (77 bp):
TCGCGTTGCGATAATACTATTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCGCGTTG
CAAATTTATAAA
Found at i:1156448 original size:20 final size:20
Alignment explanation
Indices: 1156423--1156469 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
1156413 TCGGTAATTA
1156423 GCGTTGCAAATTTGA-AAATC
1 GCGTTGCAAATTT-ATAAATC
*
1156443 GCGTTGCGAATTTATAAATC
1 GCGTTGCAAATTTATAAATC
*
1156463 GCATTGC
1 GCGTTGC
1156470 TATAATACTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 1 0.04
20 23 0.96
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (20 bp):
GCGTTGCAAATTTATAAATC
Found at i:1156542 original size:21 final size:22
Alignment explanation
Indices: 1156518--1156575 Score: 75
Period size: 21 Copynumber: 2.7 Consensus size: 22
1156508 ATTTATATAT
1156518 TCGCGTTGCAAATTTGA-AAAA
1 TCGCGTTGCAAATTTGAGAAAA
*
1156539 TCGCGTTGCGAATTT-AGAAAA
1 TCGCGTTGCAAATTTGAGAAAA
* *
1156560 TGGCGTTGCAATTTTG
1 TCGCGTTGCAAATTTG
1156576 GATAACCGCG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
20 1 0.03
21 30 0.97
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (22 bp):
TCGCGTTGCAAATTTGAGAAAA
Found at i:1163617 original size:54 final size:54
Alignment explanation
Indices: 1163554--1163883 Score: 477
Period size: 54 Copynumber: 6.1 Consensus size: 54
1163544 ATATCGACAC
*
1163554 TGAGTTTGTGAATTACCGTATCGGA-ACTATGTGTGCAACCCACGTAATTCATAA
1 TGAGTTTGTGAATTACCGTATC-GACACTATGTGTGCAACCCACATAATTCATAA
** * *
1163608 TGAGTTTGTGAATTACTATATCGTCACTATATGTGCAACCCA-ATTAATTCATAA
1 TGAGTTTGTGAATTACCGTATCGACACTATGTGTGCAACCCACA-TAATTCATAA
* ** *
1163662 TGAGTTTATGAATTACTATATCGACACTATGTGTGCAACCCACGTAATTCATAA
1 TGAGTTTGTGAATTACCGTATCGACACTATGTGTGCAACCCACATAATTCATAA
*
1163716 TGAGTTTGTGAATTACCGTATCGACACTTTGTGTGCAACCCACATAATTCATAA
1 TGAGTTTGTGAATTACCGTATCGACACTATGTGTGCAACCCACATAATTCATAA
1163770 TGAG-TTGTGAATTACCGTATCGACACTATGTGTGCAACCCACATAATTCATAA
1 TGAGTTTGTGAATTACCGTATCGACACTATGTGTGCAACCCACATAATTCATAA
* * * * *
1163823 TGAGTTTGTGAATTACCGTAGCGGCACTATATGTGCAAAACCACATAATTTATAA
1 TGAGTTTGTGAATTACCGTATCGACACTATGTGTGC-AACCCACATAATTCATAA
1163878 TGAGTT
1 TGAGTT
1163884 GAAATATTCA
Statistics
Matches: 251, Mismatches: 20, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
53 53 0.21
54 176 0.70
55 22 0.09
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (54 bp):
TGAGTTTGTGAATTACCGTATCGACACTATGTGTGCAACCCACATAATTCATAA
Found at i:1170777 original size:52 final size:53
Alignment explanation
Indices: 1170650--1170963 Score: 390
Period size: 52 Copynumber: 5.9 Consensus size: 53
1170640 TATATGTTGC
* *
1170650 ATTACTGTATCGACACTATGTGTGCAA-CC-CGTAA-TCATAATGAGTTTCTAA
1 ATTAC-GTATCGACACTATGTGTGCAACCCACGTAATTCATAATGAGTTTGTGA
*
1170701 ATTACCGTATCGGCACTATGTGTGCAACCCACGTAATTCATAATGAGTTTGTGA
1 ATTA-CGTATCGACACTATGTGTGCAACCCACGTAATTCATAATGAGTTTGTGA
1170755 ATTA-GTATCGACACTATGTGTGCAACCCACGTAATTCATAATGAGTTTGTGA
1 ATTACGTATCGACACTATGTGTGCAACCCACGTAATTCATAATGAGTTTGTGA
* *
1170807 ATTAACATATC-AGCACTATGTGTGCAAACCCAAGTAATTCATAATGAGTTT-TGA
1 ATT-ACGTATCGA-CACTATGTGTGC-AACCCACGTAATTCATAATGAGTTTGTGA
** * *
1170861 A-TACCGTATCGGTACTATGTGTGTAACCCTCGTAATTCATAATGAGTTTGTGA
1 ATTA-CGTATCGACACTATGTGTGCAACCCACGTAATTCATAATGAGTTTGTGA
* * * *
1170914 ATTACCGTATCTACACTATGTGTGCAAAACCACGAAATTTATAATGAGTT
1 ATTA-CGTATCGACACTATGTGTGC-AACCCACGTAATTCATAATGAGTT
1170964 GAAATATTCA
Statistics
Matches: 230, Mismatches: 20, Indels: 22
0.85 0.07 0.08
Matches are distributed among these distances:
51 24 0.10
52 77 0.33
53 27 0.12
54 58 0.25
55 44 0.19
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Consensus pattern (53 bp):
ATTACGTATCGACACTATGTGTGCAACCCACGTAATTCATAATGAGTTTGTGA
Found at i:1170881 original size:107 final size:106
Alignment explanation
Indices: 1170656--1170963 Score: 421
Period size: 107 Copynumber: 2.9 Consensus size: 106
1170646 TTGCATTACT
* * *
1170656 GTATCGACACTATGTGTGCAA-CCCGTAA-TCATAATGAGTTTCTAAATTACCGTATCGGCACTA
1 GTATCGACACTATGTGTGCAACCCCGTAATTCATAATGAGTTTGTGAATTACCGTATCAGCACTA
1170719 TGTGTGC-AACCCACGTAATTCATAATGAGTTTGTGAATTA
66 TGTGTGCAAACCCACGTAATTCATAATGAGTTTGTGAATTA
* *
1170759 GTATCGACACTATGTGTGCAACCCACGTAATTCATAATGAGTTTGTGAATTAACATATCAGCACT
1 GTATCGACACTATGTGTGCAACCC-CGTAATTCATAATGAGTTTGTGAATTACCGTATCAGCACT
*
1170824 ATGTGTGCAAACCCAAGTAATTCATAATGAGTTT-TGAA-TA
65 ATGTGTGCAAACCCACGTAATTCATAATGAGTTTGTGAATTA
** *
1170864 CCGTATCGGTACTATGTGTGTAACCCTCGTAATTCATAATGAGTTTGTGAATTACCGTATCTA-C
1 --GTATCGACACTATGTGTGCAACCC-CGTAATTCATAATGAGTTTGTGAATTACCGTATC-AGC
* * *
1170928 ACTATGTGTGCAAAACCACGAAATTTATAATGAGTT
62 ACTATGTGTGCAAACCCACGTAATTCATAATGAGTT
1170964 GAAATATTCA
Statistics
Matches: 182, Mismatches: 16, Indels: 10
0.88 0.08 0.05
Matches are distributed among these distances:
103 21 0.12
104 2 0.01
105 7 0.04
106 41 0.23
107 110 0.60
108 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.32
Consensus pattern (106 bp):
GTATCGACACTATGTGTGCAACCCCGTAATTCATAATGAGTTTGTGAATTACCGTATCAGCACTA
TGTGTGCAAACCCACGTAATTCATAATGAGTTTGTGAATTA
Found at i:1170889 original size:159 final size:159
Alignment explanation
Indices: 1170663--1170963 Score: 457
Period size: 159 Copynumber: 1.9 Consensus size: 159
1170653 ACTGTATCGA
1170663 CACTATGTGTGCAACCCGTAATCATAATGAGTTTCTAAATTACCGTATCGGCACTATGTGTGCAA
1 CACTATGTGTGCAACCCGTAATCATAATGAGTTTCTAAATTACCGTATCGGCACTATGTGTGCAA
* *
1170728 CCCACGTAATTCATAATGAGTTTGTGAATTA-GTATCGACACTATGTGTGC-AACCCACGTAATT
66 CCCACGTAATTCATAATGAGTTTGTGAATTACGTATCGACACTATGTGTGCAAAACCACGAAATT
1170791 CATAATGAGTTTGTGAATTAACATATCAG
131 CATAATGAGTTTGTGAATTAACATATCAG
* *
1170820 CACTATGTGTGCAAACCCAAGTAATTCATAATGAGTTT-TGAA-TACCGTATCGGTACTATGTGT
1 CACTATGTGTGC-AACCC--GTAA-TCATAATGAGTTTCTAAATTACCGTATCGGCACTATGTGT
* * *
1170883 GTAACCCTCGTAATTCATAATGAGTTTGTGAATTACCGTATCTACACTATGTGTGCAAAACCACG
62 GCAACCCACGTAATTCATAATGAGTTTGTGAATTA-CGTATCGACACTATGTGTGCAAAACCACG
*
1170948 AAATTTATAATGAGTT
126 AAATTCATAATGAGTT
1170964 GAAATATTCA
Statistics
Matches: 129, Mismatches: 8, Indels: 9
0.88 0.05 0.06
Matches are distributed among these distances:
157 12 0.09
158 5 0.04
159 53 0.41
160 7 0.05
161 31 0.24
162 21 0.16
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Consensus pattern (159 bp):
CACTATGTGTGCAACCCGTAATCATAATGAGTTTCTAAATTACCGTATCGGCACTATGTGTGCAA
CCCACGTAATTCATAATGAGTTTGTGAATTACGTATCGACACTATGTGTGCAAAACCACGAAATT
CATAATGAGTTTGTGAATTAACATATCAG
Found at i:1172613 original size:16 final size:16
Alignment explanation
Indices: 1172581--1172611 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
1172571 CTTCCCTTAC
1172581 AGTAGCTAATTCATTT
1 AGTAGCTAATTCATTT
1172597 AGTAGC-AATTCATTT
1 AGTAGCTAATTCATTT
1172612 TATTCAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (16 bp):
AGTAGCTAATTCATTT
Found at i:1174369 original size:31 final size:32
Alignment explanation
Indices: 1174303--1174375 Score: 91
Period size: 31 Copynumber: 2.4 Consensus size: 32
1174293 TAGTATTTAC
*
1174303 TAAAACAAA-AAAAATAAATATATAATATAAG
1 TAAAACAAATAAAAATAAAGATATAATATAAG
*
1174334 TAAAACAAATAAAAA-AAAGATATAATGAT-AT
1 TAAAACAAATAAAAATAAAGATATAAT-ATAAG
1174365 TAAAA-AAATAA
1 TAAAACAAATAA
1174376 TAGAAAAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
30 6 0.16
31 25 0.66
32 7 0.18
ACGTcount: A:0.71, C:0.03, G:0.04, T:0.22
Consensus pattern (32 bp):
TAAAACAAATAAAAATAAAGATATAATATAAG
Found at i:1174460 original size:35 final size:37
Alignment explanation
Indices: 1174413--1174486 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 37
1174403 ATATATATAT
1174413 ATATATAATAAAAAC-A-AAAATAGAATATTAAGAAA
1 ATATATAATAAAAACGATAAAATAGAATATTAAGAAA
* *
1174448 ATATATATTAAAAACGTATAAAATATAATATTAAGAAA
1 ATATATAATAAAAACG-ATAAAATAGAATATTAAGAAA
1174486 A
1 A
1174487 AATGTATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
35 14 0.41
37 1 0.03
38 19 0.56
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.27
Consensus pattern (37 bp):
ATATATAATAAAAACGATAAAATAGAATATTAAGAAA
Found at i:1174529 original size:2 final size:2
Alignment explanation
Indices: 1174522--1174582 Score: 83
Period size: 2 Copynumber: 32.0 Consensus size: 2
1174512 AATTATACAT
1174522 TA TA TA TA TA TA TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
1174563 TA -A GA TA TA -A GA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA
1174583 ATAAAAATAG
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
1 3 0.06
2 51 0.94
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (2 bp):
TA
Found at i:1174606 original size:23 final size:22
Alignment explanation
Indices: 1174574--1174635 Score: 58
Period size: 23 Copynumber: 2.8 Consensus size: 22
1174564 AAGATATAAG
* *
1174574 ATATATATAATAAAAATAGTATA
1 ATATAAATAATAAAAATAGGA-A
1174597 ATATAAAT-A-AAAAA-AGGAA
1 ATATAAATAATAAAAATAGGAA
1174616 ATAGTAAATAAATAAAAATA
1 ATA-TAAAT-AATAAAAATA
1174636 TAATTAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
19 4 0.12
20 8 0.25
21 5 0.16
22 2 0.06
23 12 0.38
24 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (22 bp):
ATATAAATAATAAAAATAGGAA
Found at i:1174618 original size:19 final size:20
Alignment explanation
Indices: 1174576--1174632 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
1174566 GATATAAGAT
* *
1174576 ATATATAATAAAAATAGTATA
1 ATATA-AATAAAAAAAGGATA
1174597 ATATAAATAAAAAAAGGA-A
1 ATATAAATAAAAAAAGGATA
1174616 ATAGTAAATAAATAAAA
1 ATA-TAAATAAA-AAAA
1174633 ATATAATTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.12
20 19 0.59
21 9 0.28
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.25
Consensus pattern (20 bp):
ATATAAATAAAAAAAGGATA
Found at i:1175165 original size:39 final size:40
Alignment explanation
Indices: 1175093--1175173 Score: 155
Period size: 39 Copynumber: 2.0 Consensus size: 40
1175083 GCTCGGTTGT
1175093 TGCACGTTTGTTGGTGTGGTTGTTGCTTTAAAAGATATGG
1 TGCACGTTTGTTGGTGTGGTTGTTGCTTTAAAAGATATGG
1175133 TGCACGTTTGTTGGTGT-GTTGTTGCTTTAAAAGATATGG
1 TGCACGTTTGTTGGTGTGGTTGTTGCTTTAAAAGATATGG
1175172 TG
1 TG
1175174 ATGGAAGAGT
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
39 24 0.59
40 17 0.41
ACGTcount: A:0.17, C:0.07, G:0.32, T:0.43
Consensus pattern (40 bp):
TGCACGTTTGTTGGTGTGGTTGTTGCTTTAAAAGATATGG
Found at i:1175843 original size:85 final size:83
Alignment explanation
Indices: 1175686--1175902 Score: 237
Period size: 85 Copynumber: 2.6 Consensus size: 83
1175676 AGGTGTCATC
* * *
1175686 GAGTTGAATGGAATCGAACTCGACA-GTTTTCGTTGACAGATAGCCCTTCTTGCCTTGAGCTATA
1 GAGTTGAATGTAATCGAACTCGA-AGGTTTTTGTTGACAGATAACCCTTCTTGCCTTGAGCTATA
* *
1175750 CTATAAATT-TGATTTACCTCT-
65 CTACAAATTATG-TGT--CT-TG
* * * * *
1175771 TAGTTGAATGTAATCGAACTCGAAGGTTTTTGATGATAGATAACCCTTCTTGCCTTGAGTTATGC
1 GAGTTGAATGTAATCGAACTCGAAGGTTTTTGTTGACAGATAACCCTTCTTGCCTTGAGCTATAC
*
1175836 TGCAAATTATGTGTCTTG
66 TACAAATTATGTGTCTTG
* *
1175854 GAGTTGAGTGTAGTCGAACTCGAAGG--TTTGTTGACAGATAACCCTTCTT
1 GAGTTGAATGTAATCGAACTCGAAGGTTTTTGTTGACAGATAACCCTTCTT
1175903 TGAGTTGGAT
Statistics
Matches: 113, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
81 21 0.19
82 1 0.01
83 25 0.22
84 1 0.01
85 63 0.56
86 2 0.02
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.36
Consensus pattern (83 bp):
GAGTTGAATGTAATCGAACTCGAAGGTTTTTGTTGACAGATAACCCTTCTTGCCTTGAGCTATAC
TACAAATTATGTGTCTTG
Found at i:1177340 original size:36 final size:36
Alignment explanation
Indices: 1177284--1177478 Score: 176
Period size: 36 Copynumber: 5.6 Consensus size: 36
1177274 AAAACATATT
1177284 CAAATATTT-TTTCAAGGGAAACTGTCTCAAGAGAGA
1 CAAA-ATTTATTTCAAGGGAAACTGTCTCAAGAGAGA
*
1177320 CAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGA
1 CAAAATTTATTTCAAGGGAAACTGTCTCAAGAGAGA
* * *
1177356 CGAAATTTATTTCAAGGGAAA-TGTTTTC-A-A-TG-
1 CAAAATTTATTTCAAGGGAAACTG-TCTCAAGAGAGA
* * * * *
1177388 ----TTTATATTTCAAGAGAAACTATCTCAAGGGAGG
1 CAAAATT-TATTTCAAGGGAAACTGTCTCAAGAGAGA
* *
1177421 CAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGA
1 CAAAA-TTTATTTCAAGGGAAACTGTCTCAAGAGAGA
*
1177458 CAAAATTCATTTCAAGGGAAA
1 CAAAATTTATTTCAAGGGAAA
1177479 TGTTTTCAAT
Statistics
Matches: 129, Mismatches: 17, Indels: 26
0.75 0.10 0.15
Matches are distributed among these distances:
28 2 0.02
29 16 0.12
30 2 0.02
32 1 0.01
33 1 0.01
34 1 0.01
35 7 0.05
36 67 0.52
37 30 0.23
38 2 0.02
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (36 bp):
CAAAATTTATTTCAAGGGAAACTGTCTCAAGAGAGA
Found at i:1177444 original size:37 final size:36
Alignment explanation
Indices: 1177393--1177478 Score: 118
Period size: 37 Copynumber: 2.4 Consensus size: 36
1177383 CAATGTTTAT
* * * *
1177393 ATTTCAAGAGAAACTATCTCAAGGGAGGCAAAATTTT
1 ATTTCAAGGGAAACTATCTCAAGAGAGACAAAA-TTC
*
1177430 GTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTC
1 ATTTCAAGGGAAACTATCTCAAGAGAGACAAAATTC
1177466 ATTTCAAGGGAAA
1 ATTTCAAGGGAAA
1177479 TGTTTTCAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
36 14 0.33
37 29 0.67
ACGTcount: A:0.42, C:0.14, G:0.20, T:0.24
Consensus pattern (36 bp):
ATTTCAAGGGAAACTATCTCAAGAGAGACAAAATTC
Found at i:1177455 original size:102 final size:101
Alignment explanation
Indices: 1177293--1177672 Score: 491
Period size: 102 Copynumber: 3.8 Consensus size: 101
1177283 TCAAATATTT
* * * *
1177293 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACG
1 TTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAGAGAGACG
*
1177358 AAATTTATTTCAAGGGAAATGTTTTCAATGTTTATA
66 AAATTCATTTCAAGGGAAATGTTTTCAATGTTTATA
*
1177394 TTTCAAGAGAAACTATCTCAAGGGAGGCAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGAC
1 TTTCAAGAGAAACTATCTCAAGGGAGACAAAA-TTTGTTTCAAGGGAAACTATCTCAAGAGAGAC
*
1177459 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATA
65 GAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATA
* * * * ** *
1177496 TTTCAAGAGAAACTATATAAAGGGAGATAAAATTT-TTTGAAGGGAAACTATCTCAATCGAGA-T
1 TTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAGAGAGACG
*
1177559 AAATTCATTTCAAGGG-AATGTTTTCAATGTTTATG
66 AAATTCATTTCAAGGGAAATGTTTTCAATGTTTATA
* * ** * * *
1177594 TTGTCAAGAGAAAC-GTCTCAAGGGAGACAAAATTTAGTTCCAAAAGAAAATGTCTCAAGGGAGA
1 TT-TCAAGAGAAACTATCTCAAGGGAGACAAAATTT-GTTTCAAGGGAAACTATCTCAAGAGAGA
1177658 CGAAATT-AGTTTCAA
64 CGAAATTCA-TTTCAA
1177673 TGAAAACAGA
Statistics
Matches: 244, Mismatches: 29, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
98 37 0.15
99 27 0.11
100 44 0.18
101 42 0.17
102 94 0.39
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.30
Consensus pattern (101 bp):
TTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAGAGAGACG
AAATTCATTTCAAGGGAAATGTTTTCAATGTTTATA
Found at i:1177574 original size:35 final size:35
Alignment explanation
Indices: 1177494--1177576 Score: 87
Period size: 35 Copynumber: 2.4 Consensus size: 35
1177484 TCAATGTTTA
* *
1177494 TATTTCAAGAGAAACTATATAAAGGGAGATAAAAT
1 TATTTCAAGGGAAACTATATAAAGCGAGATAAAAT
* * * * *
1177529 TTTTTGAAGGGAAACTATCTCAATCGAGAT-AAAT
1 TATTTCAAGGGAAACTATATAAAGCGAGATAAAAT
1177563 TCATTTCAAGGGAA
1 T-ATTTCAAGGGAA
1177577 TGTTTTCAAT
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
34 5 0.13
35 33 0.87
ACGTcount: A:0.43, C:0.10, G:0.18, T:0.29
Consensus pattern (35 bp):
TATTTCAAGGGAAACTATATAAAGCGAGATAAAAT
Found at i:1178620 original size:31 final size:32
Alignment explanation
Indices: 1178537--1178648 Score: 129
Period size: 32 Copynumber: 3.5 Consensus size: 32
1178527 TTTGCATCAG
* * * *
1178537 GATGTTGAAT-TCCCAAAGATGCCCCAATATTC
1 GATGTTGAATCT-CAAAAAATGCCCCAACATTT
1178569 GATGTTGAATCTCAAAAAATGCCCCAACATTT
1 GATGTTGAATCTCAAAAAATGCCCCAACATTT
* **
1178601 GATGTTAAATCT-AAAAAATGCCTTAACATTT
1 GATGTTGAATCTCAAAAAATGCCCCAACATTT
1178632 GATGTTGAATCTTCAAA
1 GATGTTGAATC-TCAAA
1178649 GATGCCCTCA
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
31 27 0.39
32 38 0.55
33 4 0.06
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (32 bp):
GATGTTGAATCTCAAAAAATGCCCCAACATTT
Found at i:1179455 original size:14 final size:13
Alignment explanation
Indices: 1179413--1179485 Score: 84
Period size: 14 Copynumber: 5.8 Consensus size: 13
1179403 TTTTCTTCAA
1179413 TTTTC-CTTTGTT
1 TTTTCTCTTTGTT
1179425 TTTTCTCTTT-TT
1 TTTTCTCTTTGTT
1179437 ATTTTCTCTTTGCTT
1 -TTTTCTCTTTG-TT
1179452 TTTTCTC--T-TT
1 TTTTCTCTTTGTT
1179462 TTTTCTCTTTGCTT
1 TTTTCTCTTTG-TT
1179476 TTTTCTCTTT
1 TTTTCTCTTT
1179486 TTGTTCTGAT
Statistics
Matches: 53, Mismatches: 0, Indels: 14
0.79 0.00 0.21
Matches are distributed among these distances:
10 9 0.17
12 9 0.17
13 14 0.26
14 19 0.36
15 2 0.04
ACGTcount: A:0.01, C:0.19, G:0.04, T:0.75
Consensus pattern (13 bp):
TTTTCTCTTTGTT
Found at i:1179485 original size:24 final size:24
Alignment explanation
Indices: 1179413--1179492 Score: 110
Period size: 24 Copynumber: 3.2 Consensus size: 24
1179403 TTTTCTTCAA
1179413 TTTTC-CTTTG-TTTTTTCTCTTTTT
1 TTTTCTCTTTGCTTTTTTCTC--TTT
1179437 ATTTTCTCTTTGCTTTTTTCTCTTT
1 -TTTTCTCTTTGCTTTTTTCTCTTT
1179462 TTTTCTCTTTGCTTTTTTCTCTTT
1 TTTTCTCTTTGCTTTTTTCTCTTT
1179486 TTGTTCT
1 TT-TTCT
1179493 GATTGAATCT
Statistics
Matches: 52, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
24 26 0.50
25 12 0.23
26 5 0.10
27 9 0.17
ACGTcount: A:0.01, C:0.19, G:0.05, T:0.75
Consensus pattern (24 bp):
TTTTCTCTTTGCTTTTTTCTCTTT
Found at i:1179488 original size:16 final size:15
Alignment explanation
Indices: 1179423--1179485 Score: 54
Period size: 13 Copynumber: 4.8 Consensus size: 15
1179413 TTTTCCTTTG
1179423 TTTTTTCTCTTT--T
1 TTTTTTCTCTTTGCT
*
1179436 TATTTTCTCTTTGC-
1 TTTTTTCTCTTTGCT
1179450 -TTTTT-TC--T-CT
1 TTTTTTCTCTTTGCT
1179460 TTTTTTCTCTTTGC-
1 TTTTTTCTCTTTGCT
1179474 TTTTTTCTCTTT
1 TTTTTTCTCTTT
1179486 TTGTTCTGAT
Statistics
Matches: 40, Mismatches: 2, Indels: 15
0.70 0.04 0.26
Matches are distributed among these distances:
9 1 0.03
10 1 0.03
11 5 0.12
12 4 0.10
13 15 0.38
14 13 0.32
15 1 0.03
ACGTcount: A:0.02, C:0.19, G:0.03, T:0.76
Consensus pattern (15 bp):
TTTTTTCTCTTTGCT
Found at i:1182648 original size:17 final size:18
Alignment explanation
Indices: 1182628--1182662 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1182618 TATTAATGGA
1182628 GTAAA-AAATAAAAAAGG
1 GTAAAGAAATAAAAAAGG
*
1182645 GTAAAGAAATTAAAAAGG
1 GTAAAGAAATAAAAAAGG
1182663 AATAAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.66, C:0.00, G:0.20, T:0.14
Consensus pattern (18 bp):
GTAAAGAAATAAAAAAGG
Found at i:1182815 original size:17 final size:17
Alignment explanation
Indices: 1182765--1182822 Score: 50
Period size: 18 Copynumber: 3.5 Consensus size: 17
1182755 ATACATGATT
*
1182765 AAAAA-AATA-ATAGAA
1 AAAAATAATATATATAA
*
1182780 AAAAATAA-AGTAAAGTAA
1 AAAAATAATA-TATA-TAA
1182798 AAAAATAATATATATAA
1 AAAAATAATATATATAA
*
1182815 ATAAATAA
1 AAAAATAA
1182823 CAAAAATAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 6 0.18
16 2 0.06
17 12 0.35
18 13 0.38
19 1 0.03
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (17 bp):
AAAAATAATATATATAA
Found at i:1182835 original size:27 final size:27
Alignment explanation
Indices: 1182784--1182835 Score: 72
Period size: 26 Copynumber: 1.9 Consensus size: 27
1182774 ATAGAAAAAA
1182784 ATAAAGTAAAGTAAAAAAATAATATAT
1 ATAAAGTAAAGTAAAAAAATAATATAT
1182811 ATAAA-TAAA-TAACAAAAATAGATAT
1 ATAAAGTAAAGTAA-AAAAATA-ATAT
1182836 TAAGAAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 3 0.13
26 11 0.48
27 9 0.39
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (27 bp):
ATAAAGTAAAGTAAAAAAATAATATAT
Found at i:1182923 original size:2 final size:2
Alignment explanation
Indices: 1182916--1182967 Score: 79
Period size: 2 Copynumber: 25.5 Consensus size: 2
1182906 AAATTAATAC
1182916 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT GAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
1182958 AT GAT AT AT A
1 AT -AT AT AT A
1182968 ATAAAAAATA
Statistics
Matches: 47, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
1 1 0.02
2 42 0.89
3 4 0.09
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1184045 original size:20 final size:20
Alignment explanation
Indices: 1184022--1184065 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
1184012 GTTATTCTGA
* *
1184022 AATTAAATGTTAGAATGTTG
1 AATTAAATGTAAAAATGTTG
**
1184042 AATTTGATGTAAAAATGTTG
1 AATTAAATGTAAAAATGTTG
1184062 AATT
1 AATT
1184066 GGATCAATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (20 bp):
AATTAAATGTAAAAATGTTG
Found at i:1186859 original size:25 final size:25
Alignment explanation
Indices: 1186812--1186859 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
1186802 GTGTAATGAT
*
1186812 TTTTTAATAATGATTTTTAATTTAA
1 TTTTTAATAATGATATTTAATTTAA
*
1186837 TTTTTAATACT-ATATTTATATTT
1 TTTTTAATAATGATATTTA-ATTT
1186860 TTAAAAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (25 bp):
TTTTTAATAATGATATTTAATTTAA
Found at i:1190181 original size:100 final size:100
Alignment explanation
Indices: 1190038--1190239 Score: 370
Period size: 100 Copynumber: 2.0 Consensus size: 100
1190028 GTAATCTCGA
*
1190038 ATTAAGCTTTTATAGTCATGTTTTGTTTCAGATTATAGCACATTGACTGAGGCAAAGTAGCTAAG
1 ATTAAGCTTTTATAGTCATGTTTTGTTTCAGATTATAGCACATTGACTAAGGCAAAGTAGCTAAG
1190103 CAAAATAGCATCGACAATGT-AAAATGAAGGTTCT
66 CAAAATAGCATCGACAATGTAAAAATGAAGGTTCT
1190137 ATTAAGCTTTTATAGTCATGTTTTTGTTTCAGATTATAGCACATTGACTAAGGCAAAGTAGCTAA
1 ATTAAGCTTTTATAGTCATG-TTTTGTTTCAGATTATAGCACATTGACTAAGGCAAAGTAGCTAA
1190202 GCAAAATAGCATCGACAATGTAAAAAATGAAGGTTCT
65 GCAAAATAGCATCGACAATGT-AAAAATGAAGGTTCT
1190239 A
1 A
1190240 CAAGACAATG
Statistics
Matches: 99, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
99 20 0.20
100 64 0.65
102 15 0.15
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (100 bp):
ATTAAGCTTTTATAGTCATGTTTTGTTTCAGATTATAGCACATTGACTAAGGCAAAGTAGCTAAG
CAAAATAGCATCGACAATGTAAAAATGAAGGTTCT
Found at i:1190752 original size:44 final size:42
Alignment explanation
Indices: 1190640--1190752 Score: 102
Period size: 46 Copynumber: 2.6 Consensus size: 42
1190630 AAACACCGCT
** *
1190640 ATAACATGTCTTTTGCGGCGTTTGTATATAAAATGCCGCTAA
1 ATAACATGTCTTTTAAGGCGTTTGTATAAAAAATGCCGCTAA
* ** * *
1190682 ATAACTTGTCTTTTTTGCTACATTTGTATAAAAAAACCT-CCGCTAA
1 ATAACATGTCTTTTAAG--GCGTTTGTAT-AAAAAA--TGCCGCTAA
1190728 ATAACATGTCTTTTAAGGCGTTTGT
1 ATAACATGTCTTTTAAGGCGTTTGT
1190753 TAACGTAAAA
Statistics
Matches: 55, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
42 14 0.25
44 14 0.25
45 5 0.09
46 21 0.38
47 1 0.02
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (42 bp):
ATAACATGTCTTTTAAGGCGTTTGTATAAAAAATGCCGCTAA
Found at i:1192687 original size:115 final size:115
Alignment explanation
Indices: 1192485--1192714 Score: 460
Period size: 115 Copynumber: 2.0 Consensus size: 115
1192475 ATCTGCCCAT
1192485 CTCTTGTTGGCATCCTAACTCTTTCATTAACAATGATAATCGGTCTAGACACAAACATTCTTCAG
1 CTCTTGTTGGCATCCTAACTCTTTCATTAACAATGATAATCGGTCTAGACACAAACATTCTTCAG
1192550 CAAAGTTTGAACAATCGCTTCTATCTTGTCAATCGGCCAAAACAATTTAA
66 CAAAGTTTGAACAATCGCTTCTATCTTGTCAATCGGCCAAAACAATTTAA
1192600 CTCTTGTTGGCATCCTAACTCTTTCATTAACAATGATAATCGGTCTAGACACAAACATTCTTCAG
1 CTCTTGTTGGCATCCTAACTCTTTCATTAACAATGATAATCGGTCTAGACACAAACATTCTTCAG
1192665 CAAAGTTTGAACAATCGCTTCTATCTTGTCAATCGGCCAAAACAATTTAA
66 CAAAGTTTGAACAATCGCTTCTATCTTGTCAATCGGCCAAAACAATTTAA
1192715 TTTCCATCTG
Statistics
Matches: 115, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
115 115 1.00
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.32
Consensus pattern (115 bp):
CTCTTGTTGGCATCCTAACTCTTTCATTAACAATGATAATCGGTCTAGACACAAACATTCTTCAG
CAAAGTTTGAACAATCGCTTCTATCTTGTCAATCGGCCAAAACAATTTAA
Found at i:1196206 original size:3 final size:3
Alignment explanation
Indices: 1196198--1196238 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
1196188 GGAAAGCGTT
1196198 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
1196239 TCAATTATAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.34, T:0.34
Consensus pattern (3 bp):
TGA
Found at i:1197032 original size:28 final size:28
Alignment explanation
Indices: 1196988--1197042 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
1196978 ATCCGTTGAG
*
1196988 TGTGTCTGTTGTCAATGTTGTTTTCTTT
1 TGTGTCCGTTGTCAATGTTGTTTTCTTT
*
1197016 TGTGTCCGTTGTTAATGTTGTTTTCTT
1 TGTGTCCGTTGTCAATGTTGTTTTCTT
1197043 GTGAGGTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.07, C:0.11, G:0.22, T:0.60
Consensus pattern (28 bp):
TGTGTCCGTTGTCAATGTTGTTTTCTTT
Found at i:1200555 original size:17 final size:20
Alignment explanation
Indices: 1200528--1200565 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
1200518 GTGAAACTAG
1200528 AAAATGTATCG-GT-GTATA
1 AAAATGTATCGTGTCGTATA
1200546 AAAATG-ATCGTGTCGTATA
1 AAAATGTATCGTGTCGTATA
1200565 A
1 A
1200566 GATATGTGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.22
18 8 0.44
19 6 0.33
ACGTcount: A:0.39, C:0.08, G:0.21, T:0.32
Consensus pattern (20 bp):
AAAATGTATCGTGTCGTATA
Found at i:1201209 original size:12 final size:12
Alignment explanation
Indices: 1201192--1201218 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
1201182 TCACCCACTC
1201192 TTCTTCTTCTTA
1 TTCTTCTTCTTA
1201204 TTCTTCTTCTTA
1 TTCTTCTTCTTA
1201216 TTC
1 TTC
1201219 CTTCCATTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.26, G:0.00, T:0.67
Consensus pattern (12 bp):
TTCTTCTTCTTA
Found at i:1221076 original size:20 final size:21
Alignment explanation
Indices: 1221047--1221085 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
1221037 AGAATGCTCG
1221047 GGGGGAACCGATT-CCCCCCA
1 GGGGGAACCGATTACCCCCCA
*
1221067 GGGGGTACCGATTACCCCC
1 GGGGGAACCGATTACCCCC
1221086 TTGTATAACG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.18, C:0.38, G:0.31, T:0.13
Consensus pattern (21 bp):
GGGGGAACCGATTACCCCCCA
Found at i:1223332 original size:14 final size:14
Alignment explanation
Indices: 1223313--1223374 Score: 63
Period size: 14 Copynumber: 4.4 Consensus size: 14
1223303 CGTTCGATAA
*
1223313 TTTGTTCGTTTATG
1 TTTGTTCATTTATG
1223327 TTTGTTCATTTATG
1 TTTGTTCATTTATG
* * *
1223341 TTT-TTTATGTTTTT
1 TTTGTTCAT-TTATG
1223355 TTTGTTCATTTATG
1 TTTGTTCATTTATG
*
1223369 CTTGTT
1 TTTGTT
1223375 TATGTTCACT
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
13 4 0.11
14 30 0.79
15 4 0.11
ACGTcount: A:0.10, C:0.06, G:0.15, T:0.69
Consensus pattern (14 bp):
TTTGTTCATTTATG
Found at i:1223382 original size:20 final size:19
Alignment explanation
Indices: 1223335--1223382 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
1223325 TGTTTGTTCA
* *
1223335 TTTATGTT-TTTTATGTTT
1 TTTATGTTCATTTATGTTG
*
1223353 TTTTTGTTCATTTATGCTTG
1 TTTATGTTCATTTATG-TTG
1223373 TTTATGTTCA
1 TTTATGTTCA
1223383 CTAGACCCGT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 7 0.29
19 6 0.25
20 11 0.46
ACGTcount: A:0.12, C:0.06, G:0.12, T:0.69
Consensus pattern (19 bp):
TTTATGTTCATTTATGTTG
Found at i:1223620 original size:24 final size:24
Alignment explanation
Indices: 1223593--1223646 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
1223583 GGTTACGTTT
*
1223593 GTTTATGTTCATTCGCTTGTGTTC
1 GTTTATGTTCATTCACTTGTGTTC
* * * *
1223617 GTTTACGTTCGTTCATTTGTGTTT
1 GTTTATGTTCATTCACTTGTGTTC
1223641 GTTTAT
1 GTTTAT
1223647 CATTTTAACG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.09, C:0.13, G:0.20, T:0.57
Consensus pattern (24 bp):
GTTTATGTTCATTCACTTGTGTTC
Found at i:1224469 original size:9 final size:8
Alignment explanation
Indices: 1224444--1224691 Score: 132
Period size: 7 Copynumber: 30.8 Consensus size: 8
1224434 TTCGTCTAAA
1224444 ATTATTAT
1 ATTATTAT
1224452 A-TATTAT
1 ATTATTAT
1224459 ATTATT-T
1 ATTATTAT
1224466 A-TATTAT
1 ATTATTAT
*
1224473 ATAATATAT
1 ATTAT-TAT
*
1224482 AGTA-TAT
1 ATTATTAT
1224489 AGTGTATTAT
1 A-T-TATTAT
*
1224499 A-TAGTAT
1 ATTATTAT
1224506 ATATATTAT
1 AT-TATTAT
*
1224515 A-TAGTAT
1 ATTATTAT
1224522 ATTA-TAT
1 ATTATTAT
1224529 ATTA-TAT
1 ATTATTAT
*
1224536 ATTA-CAT
1 ATTATTAT
*
1224543 ATTATAAT
1 ATTATTAT
*
1224551 ATAACTATAT
1 ATTA-T-TAT
1224561 ATCTA-TAT
1 AT-TATTAT
1224569 ATTATTGATT
1 ATTATT-A-T
*
1224579 ATTGTATAT
1 ATTAT-TAT
*
1224588 AATATTAT
1 ATTATTAT
1224596 -TTATTAT
1 ATTATTAT
1224603 ATTATTATT
1 ATTATTA-T
1224612 ATTA-TAT
1 ATTATTAT
1224619 ATTAATTAT
1 ATT-ATTAT
1224628 ATTA-TATT
1 ATTATTA-T
1224636 ATTATATAT
1 ATTAT-TAT
1224645 ATTA-TAT
1 ATTATTAT
1224652 ATTCATTAT
1 ATT-ATTAT
*
1224661 AGTATTAT
1 ATTATTAT
1224669 -TATATTTAT
1 AT-TA-TTAT
1224678 ATTAATT-T
1 ATT-ATTAT
1224686 ATTATT
1 ATTATT
1224692 TTAGGTCCAA
Statistics
Matches: 191, Mismatches: 18, Indels: 63
0.70 0.07 0.23
Matches are distributed among these distances:
6 4 0.02
7 70 0.37
8 50 0.26
9 47 0.25
10 18 0.09
11 2 0.01
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (8 bp):
ATTATTAT
Found at i:1224473 original size:19 final size:19
Alignment explanation
Indices: 1224451--1224692 Score: 104
Period size: 19 Copynumber: 12.8 Consensus size: 19
1224441 AAAATTATTA
1224451 TATATTATATTATTTATAT
1 TATATTATATTATTTATAT
* * *
1224470 TATATAATATATAGTATATAG
1 TATATTATAT-TA-TTTATAT
* *
1224491 TGTATTATATAGTATATATAT
1 TATATTATAT--TATTTATAT
*
1224512 TATATAGTATATTATATAT-T
1 TATAT--TATATTATTTATAT
* *
1224532 ATATATTACA-TA-TTATAA
1 -TATATTATATTATTTATAT
* *
1224550 TATAACTATA-TATCTATA-
1 TAT-ATTATATTATTTATAT
*
1224568 TATTATT-GATTATTGTATAT
1 TA-TATTATATTATT-TATAT
*
1224588 AATATTAT-TTA-TTATAT
1 TATATTATATTATTTATAT
1224605 TATTATTAT-TATATATTA-AT
1 TA-TATTATAT-TAT-TTATAT
1224625 TATATTATATTA-TTATA-
1 TATATTATATTATTTATAT
*
1224642 TATATTATA-TATTCAT-T
1 TATATTATATTATTTATAT
1224659 ATAGTATTAT-TATATTTATAT
1 -TA-TATTATAT-TATTTATAT
1224680 TA-ATT-TATTATTT
1 TATATTATATTATTT
1224693 TAGGTCCAAA
Statistics
Matches: 173, Mismatches: 22, Indels: 58
0.68 0.09 0.23
Matches are distributed among these distances:
16 2 0.01
17 34 0.20
18 30 0.17
19 44 0.25
20 17 0.10
21 39 0.23
22 2 0.01
23 5 0.03
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (19 bp):
TATATTATATTATTTATAT
Found at i:1224496 original size:26 final size:25
Alignment explanation
Indices: 1224445--1224652 Score: 143
Period size: 26 Copynumber: 8.4 Consensus size: 25
1224435 TCGTCTAAAA
*
1224445 TTATTATAT-AT-TATATTATTTA-
1 TTATTATATAATATATATTATATAG
*
1224467 -TATTATATAATATATAGTATATAG
1 TTATTATATAATATATATTATATAG
1224491 TGTATTATATAGTATATATATTATATAG
1 T-TATTATATA--ATATATATTATATAG
* *
1224519 TATATTATATATTATATATTACATA-
1 T-TATTATATAATATATATTATATAG
*
1224544 TTATAATATAACTATATATCTATATA-
1 TTATTATATAA-TATATAT-TATATAG
* * * *
1224570 TTATTGAT-TATTGTATATAATATTAT
1 TTATT-ATATAATATATATTATA-TAG
*
1224596 TTATTATATTAT-TATTATTATATA-
1 TTATTATATAATATA-TATTATATAG
*
1224620 TTAATTATATTATAT-TATTATATA-
1 TT-ATTATATAATATATATTATATAG
1224644 -TATTATATA
1 TTATTATATA
1224653 TTCATTATAG
Statistics
Matches: 153, Mismatches: 17, Indels: 32
0.76 0.08 0.16
Matches are distributed among these distances:
21 8 0.05
22 9 0.06
23 10 0.07
24 22 0.14
25 32 0.21
26 46 0.30
27 2 0.01
28 24 0.16
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.54
Consensus pattern (25 bp):
TTATTATATAATATATATTATATAG
Found at i:1224580 original size:33 final size:30
Alignment explanation
Indices: 1224446--1224681 Score: 107
Period size: 33 Copynumber: 7.6 Consensus size: 30
1224436 CGTCTAAAAT
*
1224446 TATTATATATTA-TATTATT-TATATTATA
1 TATTATATATTATTATTATTATATAATATA
* *
1224474 TAATATATAGTATATAGTGTATTATATAGTATATA
1 TATTATATATTAT-TA-T-TATTATATA--ATATA
* *
1224509 TATTATATAGTATATTATATATTATATATTACA
1 TATTATATA-T-TATTAT-TATTATATAATATA
* * *
1224542 TATTATAATATAACTATATATCTATATATTAT-
1 TATTAT-ATATTATTAT-TAT-TATATAATATA
* * *
1224574 TGATTATTGTATATAATATTATT-TATTATAT-
1 T-ATTA-TATAT-TATTATTATTATATAATATA
*
1224605 TATTAT-TATTATATATTAATTATATTATAT-
1 TATTATATATTAT-TATT-ATTATATAATATA
*
1224635 TATTATATA-TATTATATATTCATTATAGTAT-
1 TATTATATATTATTAT-TATT-A-TATAATATA
1224666 TATTATAT-TTA-TATTA
1 TATTATATATTATTATTA
1224682 ATTTATTATT
Statistics
Matches: 167, Mismatches: 19, Indels: 43
0.73 0.08 0.19
Matches are distributed among these distances:
27 2 0.01
28 17 0.10
29 12 0.07
30 28 0.17
31 26 0.16
32 14 0.08
33 33 0.20
34 8 0.05
35 22 0.13
36 2 0.01
37 3 0.02
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (30 bp):
TATTATATATTATTATTATTATATAATATA
Found at i:1224602 original size:3 final size:3
Alignment explanation
Indices: 1224590--1224691 Score: 67
Period size: 3 Copynumber: 34.3 Consensus size: 3
1224580 TTGTATATAA
1224590 TAT TATT TAT TA- TAT TAT TAT TAT TAT ATAT TAAT TA- TAT TA- TAT
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT -TAT T-AT TAT TAT TAT TAT
*
1224635 TAT TA- TAT ATAT TAT ATAT TCAT TA- TAG TAT TAT TA- TAT T-T ATAT
1 TAT TAT TAT -TAT TAT -TAT T-AT TAT TAT TAT TAT TAT TAT TAT -TAT
*
1224680 TAA T-T TAT TAT T
1 TAT TAT TAT TAT T
1224692 TTAGGTCCAA
Statistics
Matches: 81, Mismatches: 3, Indels: 30
0.71 0.03 0.26
Matches are distributed among these distances:
2 14 0.17
3 48 0.59
4 19 0.23
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:1224688 original size:50 final size:55
Alignment explanation
Indices: 1224507--1224691 Score: 134
Period size: 62 Copynumber: 3.3 Consensus size: 55
1224497 ATATAGTATA
* * *
1224507 TATATTATA-TAGTATATTATATATTATATATTACA-TATTA-TAATATAACTATATATCT
1 TATATTATATTATTATA-TA-ATATTATATATTACATTATTAGTATTAT-A-TAT-TA-AT
* * *
1224565 ATATATTATTGATTATTGTATATAATATTATTTATTATATTATTATTATTATATATTAAT
1 -TATATTA-T-ATTA-T-TATATAATATTATATATTACATTATTAGTATTATATATTAAT
1224625 TATATTATATTATTATAT-ATATTATATATT-CATTA-TAGTATTATTATATTTATAT
1 TATATTATATTATTATATAATATTATATATTACATTATTAGTATTA-TATA-TTA-AT
1224680 TA-ATT-TATTATT
1 TATATTATATTATT
1224692 TTAGGTCCAA
Statistics
Matches: 108, Mismatches: 8, Indels: 26
0.76 0.06 0.18
Matches are distributed among these distances:
52 7 0.06
53 15 0.14
54 17 0.16
55 9 0.08
56 1 0.01
57 4 0.04
58 1 0.01
59 14 0.13
60 2 0.02
61 3 0.03
62 18 0.17
63 8 0.07
64 9 0.08
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.56
Consensus pattern (55 bp):
TATATTATATTATTATATAATATTATATATTACATTATTAGTATTATATATTAAT
Found at i:1228480 original size:21 final size:21
Alignment explanation
Indices: 1228442--1228481 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1228432 TACTGATACC
*
1228442 ACATATATATTCCAAAGGATT
1 ACATATATATCCCAAAGGATT
* *
1228463 ACATATATGTCCCGAAGGA
1 ACATATATATCCCAAAGGA
1228482 CCACGTAGAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (21 bp):
ACATATATATCCCAAAGGATT
Found at i:1236015 original size:39 final size:39
Alignment explanation
Indices: 1235935--1236015 Score: 94
Period size: 39 Copynumber: 2.1 Consensus size: 39
1235925 GAGGGGGAAC
* * **
1235935 CATCCAAAGAATCAAGTTGACTTTTCCATGAAGGGGAGT
1 CATCCAAAGAACCAAATTGACTTAACCATGAAGGGGAGT
1235974 CATCCAAAGAACCAATATTGACTTAAACCATG-AGGGG-GT
1 CATCCAAAGAACCAA-ATTGACTT-AACCATGAAGGGGAGT
1236013 CAT
1 CAT
1236016 ATCATTTGGT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
39 19 0.53
40 12 0.33
41 5 0.14
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (39 bp):
CATCCAAAGAACCAAATTGACTTAACCATGAAGGGGAGT
Found at i:1237191 original size:5 final size:5
Alignment explanation
Indices: 1237157--1237498 Score: 169
Period size: 5 Copynumber: 70.2 Consensus size: 5
1237147 TGTCCATGAT
* * * *
1237157 TATTA TAATA TATAA TATTA TA-TA TTTTA TATTA TAGTA TA-TA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
* * *
1237205 TATTA T-TTA TATTA TA-TA GTA-TA TAGTA TA-TA TAGTG TATTA TA-TA
1 TATTA TATTA TATTA TATTA -TATTA TATTA TATTA TATTA TATTA TATTA
* *
1237251 TATATA TATTA TA--A TATTA TATGT- TATATA TATGA TATTA CA-TA
1 TAT-TA TATTA TATTA TATTA TAT-TA TAT-TA TATTA TATTA TATTA
* * * * *
1237295 TGTTA TA--A TAGTA TATTA TA-TA GTA-TG TATTA TA-TA TGTTA TAATA
1 TATTA TATTA TATTA TATTA TATTA -TATTA TATTA TATTA TATTA TATTA
* **
1237341 TATTATA TATTA TATTA TATCTA TA-TA TCTATA TATTA T-TTA TTACAA
1 TA-T-TA TATTA TATTA TAT-TA TATTA TAT-TA TATTA TATTA -TATTA
*
1237389 TA-TA TAGTA TTATT- TATTA TATTA TTATTA TTATTA T-TATA TATTA
1 TATTA TATTA -TATTA TATTA TATTA -TATTA -TATTA TAT-TA TATTA
* *
1237435 -ATTT TATTA TATTA TATTA TA-TA TA-TA TTATTA TAATA TTATTA TATTTA
1 TATTA TATTA TATTA TATTA TATTA TATTA -TATTA TATTA -TATTA TA-TTA
1237485 TATTA -ATT- TATTA T
1 TATTA TATTA TATTA T
1237499 TTTAGGTTCA
Statistics
Matches: 265, Mismatches: 34, Indels: 76
0.71 0.09 0.20
Matches are distributed among these distances:
3 6 0.02
4 61 0.23
5 149 0.56
6 45 0.17
7 4 0.02
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (5 bp):
TATTA
Found at i:1237277 original size:7 final size:7
Alignment explanation
Indices: 1237157--1237487 Score: 230
Period size: 7 Copynumber: 47.1 Consensus size: 7
1237147 TGTCCATGAT
1237157 TATTATA
1 TATTATA
1237164 -ATATATAA
1 TAT-TAT-A
1237172 TATTATA
1 TATTATA
*
1237179 TATTTTA
1 TATTATA
1237186 TATTATA
1 TATTATA
1237193 GTA-TATA
1 -TATTATA
1237200 TATTATA
1 TATTATA
1237207 TTATT-TA
1 -TATTATA
1237214 TATTATA
1 TATTATA
*
1237221 TAGTATA
1 TATTATA
*
1237228 TAGTATA
1 TATTATA
*
1237235 TA-TAGTG
1 TATTA-TA
1237242 TATTATA
1 TATTATA
1237249 TATATATA
1 TAT-TATA
1237257 TATTATAA
1 TATTAT-A
1237265 TATTATA
1 TATTATA
*
1237272 TGTTATA
1 TATTATA
1237279 TA-TATGA
1 TATTAT-A
*
1237286 TATTACA
1 TATTATA
1237293 TATGT-TA
1 TAT-TATA
*
1237300 TAATAGTA
1 TATTA-TA
1237308 TATTATA
1 TATTATA
* *
1237315 TAGTATG
1 TATTATA
1237322 TATTATA
1 TATTATA
1237329 TATGT-TA
1 TAT-TATA
1237336 TA--ATA
1 TATTATA
1237341 TATTATA
1 TATTATA
1237348 TA-T-TA
1 TATTATA
1237353 TATTATA
1 TATTATA
*
1237360 T-CTATA
1 TATTATA
1237366 TATCTATA
1 TAT-TATA
*
1237374 TATTATT
1 TATTATA
*
1237381 TATTACA
1 TATTATA
1237388 -ATATATA
1 TAT-TATA
*
1237395 GTATTATT
1 -TATTATA
1237403 TATTATA
1 TATTATA
1237410 TTATTAT-
1 -TATTATA
1237417 TATTAT-
1 TATTATA
1237423 TATTATA
1 TATTATA
1237430 TATTA-A
1 TATTATA
*
1237436 TTTTATTA
1 TATTA-TA
1237444 TATTATA
1 TATTATA
1237451 TTATATATA
1 -TAT-TATA
1237460 TATTAT-
1 TATTATA
*
1237466 TATAATA
1 TATTATA
1237473 TTATTATA
1 -TATTATA
1237481 T-TTATA
1 TATTATA
1237487 T
1 T
1237488 TAATTTATTA
Statistics
Matches: 262, Mismatches: 27, Indels: 71
0.73 0.08 0.20
Matches are distributed among these distances:
5 8 0.03
6 51 0.19
7 126 0.48
8 69 0.26
9 8 0.03
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (7 bp):
TATTATA
Found at i:1237282 original size:19 final size:19
Alignment explanation
Indices: 1237155--1237499 Score: 173
Period size: 19 Copynumber: 18.5 Consensus size: 19
1237145 TTTGTCCATG
*
1237155 ATTAT-TATAATATATAAT
1 ATTATATATTATATATAAT
* *
1237173 ATTATATATTTTATATTAT
1 ATTATATATTATATATAAT
* *
1237192 AGTATATA-TAT-TATATT
1 ATTATATATTATATATAAT
1237209 ATT-TATATTATATAGTATAT
1 ATTATATATTATATA-TA-AT
* * *
1237229 AGTATATA-TAGTGTATTAT
1 ATTATATATTA-TATATAAT
1237248 A-TATATA-TATATTATAAT
1 ATTATATATTATA-TATAAT
*
1237266 ATTATATGTTATATATATGAT
1 ATTATATATTATATATA--AT
* *
1237287 ATTACATA-TGT-TATAAT
1 ATTATATATTATATATAAT
* *
1237304 A--GTATATTATATAGTATGT
1 ATTATATATTATATA-TA-AT
1237323 ATTATATATGT-TATA-ATAT
1 ATTATATAT-TATATATA-AT
1237342 ATTATATATTATAT-T-AT
1 ATTATATATTATATATAAT
*
1237359 ATCTATATATCTATATATTAT
1 AT-TATATAT-TATATATAAT
** *
1237380 -TTAT-TACAATATATAGT
1 ATTATATATTATATATAAT
* *
1237397 ATTATTTATTATAT-TATT
1 ATTATATATTATATATAAT
1237415 ATTATTATTATTATATATTAAT
1 ATTA-TA-TATTATATA-TAAT
*
1237437 TTTATTATATTATAT-T-AT
1 ATTA-TATATTATATATAAT
1237455 A-TATATATTAT-TATAAT
1 ATTATATATTATATATAAT
1237472 ATTATTATATT-TATATTAAT
1 ATTA-TATATTATATA-TAAT
1237492 -TTAT-TATT
1 ATTATATATT
1237500 TTAGGTTCAA
Statistics
Matches: 255, Mismatches: 35, Indels: 75
0.70 0.10 0.21
Matches are distributed among these distances:
15 4 0.02
16 15 0.06
17 35 0.14
18 52 0.20
19 79 0.31
20 26 0.10
21 34 0.13
22 10 0.04
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (19 bp):
ATTATATATTATATATAAT
Found at i:1237326 original size:36 final size:37
Alignment explanation
Indices: 1237254--1237340 Score: 115
Period size: 36 Copynumber: 2.4 Consensus size: 37
1237244 TTATATATAT
* *
1237254 ATATATTATAATATTATATGTTATATATATGATATTAC
1 ATATGTTATAATAGTATA-GTTATATATATGATATTAC
*
1237292 ATATGTTATAATAGTATA-TTATATAGTATG-TATTAT
1 ATATGTTATAATAGTATAGTTATATA-TATGATATTAC
1237328 ATATGTTATAATA
1 ATATGTTATAATA
1237341 TATTATATAT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
36 25 0.56
37 4 0.09
38 16 0.36
ACGTcount: A:0.41, C:0.01, G:0.08, T:0.49
Consensus pattern (37 bp):
ATATGTTATAATAGTATAGTTATATATATGATATTAC
Found at i:1237393 original size:43 final size:41
Alignment explanation
Indices: 1237172--1237498 Score: 173
Period size: 44 Copynumber: 7.8 Consensus size: 41
1237162 TAATATATAA
* *
1237172 TATTAT-ATATTTTATATTATAGTATATA-TATTATATTATT
1 TATTATAATATATTATATTATATTATATATTA-TATATTATT
* * * *
1237212 TA-TATTATATAGTATATAGTATATATAGTGTATTATATATATATA
1 TATTATAATATA-T-TATATTATAT-TA-TATATTATATAT-TATT
* * *
1237257 TATTATAATAT-TATATGTTATATATATGATATTACATA-T-GT
1 TATTATAATATAT-TATATTATAT-TAT-ATATTATATATTATT
* * *
1237298 TATAATAGTATATTATA-TAGTATGTAT-TA-TATATGTTA-T
1 TATTATAATATATTATATTA-TAT-TATATATTATATATTATT
* *
1237337 AATATATTATATATTATATTATATCTATATATCTATATATTATT
1 TAT-TATAATATATTATATTATAT-TATATAT-TATATATTATT
*
1237381 TATTACAATATA-TAGTATTAT-TTATTATATTAT-TATTA-T
1 TATTATAATATATTA-TATTATATTA-TATATTATATATTATT
* *
1237420 TATTATTATATATTA-ATTTTATTATAT-TATATTATATATATAT
1 TATTATAATATATTATATTATATTATATAT-TA-TATAT-TAT-T
*
1237463 TATTATAATATTATTATATTTATATTAATTTATTAT
1 TATTATAATA-TATTATA-TTATATT-ATATATTAT
1237499 TTTAGGTTCA
Statistics
Matches: 220, Mismatches: 33, Indels: 62
0.70 0.10 0.20
Matches are distributed among these distances:
37 1 0.00
38 13 0.06
39 24 0.11
40 35 0.16
41 30 0.14
42 18 0.08
43 34 0.15
44 37 0.17
45 8 0.04
46 14 0.06
47 5 0.02
48 1 0.00
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.55
Consensus pattern (41 bp):
TATTATAATATATTATATTATATTATATATTATATATTATT
Found at i:1237408 original size:3 final size:3
Alignment explanation
Indices: 1237396--1237499 Score: 80
Period size: 3 Copynumber: 35.3 Consensus size: 3
1237386 CAATATATAG
1237396 TAT TATT TAT TA- TAT TAT TAT TAT TAT TAT TAT ATAT TAAT T-T TAT
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT T-AT TAT TAT
*
1237442 TA- TAT TA- TAT TAT ATAT ATAT TAT TA- TAA TAT TAT TA- TAT T-T
1 TAT TAT TAT TAT TAT -TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
1237484 ATAT TAA T-T TAT TAT T
1 -TAT TAT TAT TAT TAT T
1237500 TTAGGTTCAA
Statistics
Matches: 85, Mismatches: 3, Indels: 26
0.75 0.03 0.23
Matches are distributed among these distances:
2 14 0.16
3 54 0.64
4 17 0.20
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:1237496 original size:14 final size:14
Alignment explanation
Indices: 1237422--1237496 Score: 52
Period size: 14 Copynumber: 5.4 Consensus size: 14
1237412 ATTATTATTA
1237422 TTATTATATATTAAT
1 TTATT-TATATTAAT
1237437 TT-TATTATATTATAT
1 TTAT-TTATATTA-AT
*
1237452 TATATATATATT-A-
1 T-TATTTATATTAAT
*
1237465 TTA-TAATATT-AT
1 TTATTTATATTAAT
1237477 TATATTTATATTAAT
1 T-TATTTATATTAAT
1237492 TTATT
1 TTATT
1237497 ATTTTAGGTT
Statistics
Matches: 48, Mismatches: 4, Indels: 17
0.70 0.06 0.25
Matches are distributed among these distances:
11 6 0.12
12 3 0.06
13 3 0.06
14 19 0.40
15 9 0.19
16 7 0.15
17 1 0.02
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
TTATTTATATTAAT
Found at i:1239974 original size:39 final size:39
Alignment explanation
Indices: 1239931--1240048 Score: 166
Period size: 39 Copynumber: 3.0 Consensus size: 39
1239921 ACATGATGGA
*
1239931 GCATCGAGAGCTGCAAG-CCTGGGTGATGAGCATCCTGCT
1 GCATCGAGAGCTGCAAGTCC-GGATGATGAGCATCCTGCT
*
1239970 GCATCGAGAGCTGCAAGTCCGGATGATGAGCATCCTGTT
1 GCATCGAGAGCTGCAAGTCCGGATGATGAGCATCCTGCT
* * * *
1240009 ACATCGAGAGTTACAAGTCCGGATGATGAGCATTCTGCT
1 GCATCGAGAGCTGCAAGTCCGGATGATGAGCATCCTGCT
1240048 G
1 G
1240049 TGTCAAGAGT
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
39 68 0.97
40 2 0.03
ACGTcount: A:0.24, C:0.23, G:0.31, T:0.23
Consensus pattern (39 bp):
GCATCGAGAGCTGCAAGTCCGGATGATGAGCATCCTGCT
Found at i:1240058 original size:39 final size:39
Alignment explanation
Indices: 1239931--1240067 Score: 159
Period size: 39 Copynumber: 3.5 Consensus size: 39
1239921 ACATGATGGA
* *
1239931 GCATCGAGAGCTGCAAG-CCTGGGTGATGAGCATCCTGCT
1 GCATCGAGAGTTGCAAGTCC-GGATGATGAGCATCCTGCT
* *
1239970 GCATCGAGAGCTGCAAGTCCGGATGATGAGCATCCTGTT
1 GCATCGAGAGTTGCAAGTCCGGATGATGAGCATCCTGCT
* * *
1240009 ACATCGAGAGTTACAAGTCCGGATGATGAGCATTCTGCT
1 GCATCGAGAGTTGCAAGTCCGGATGATGAGCATCCTGCT
** * *
1240048 GTGTCAAGAGTGGCAAGTCC
1 GCATCGAGAGTTGCAAGTCC
1240068 TGTTTTGGTT
Statistics
Matches: 84, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
39 82 0.98
40 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.31, T:0.23
Consensus pattern (39 bp):
GCATCGAGAGTTGCAAGTCCGGATGATGAGCATCCTGCT
Found at i:1246423 original size:158 final size:158
Alignment explanation
Indices: 1246135--1246451 Score: 634
Period size: 158 Copynumber: 2.0 Consensus size: 158
1246125 GAATCTATTG
1246135 GCTATGACTTTCATAACAAGCTTATAAAGAACCATGCACAGACCGATGGACCAAGAATTCGTAAA
1 GCTATGACTTTCATAACAAGCTTATAAAGAACCATGCACAGACCGATGGACCAAGAATTCGTAAA
1246200 TGCTTCGGGGTTCTTGCGTTTAGGAACTAGGACGATCAAGGCCTTGTTGAGCTCCGGTTCAATAG
66 TGCTTCGGGGTTCTTGCGTTTAGGAACTAGGACGATCAAGGCCTTGTTGAGCTCCGGTTCAATAG
1246265 GCTTGTCGTTGAATGTGTCCTTAGCCCA
131 GCTTGTCGTTGAATGTGTCCTTAGCCCA
1246293 GCTATGACTTTCATAACAAGCTTATAAAGAACCATGCACAGACCGATGGACCAAGAATTCGTAAA
1 GCTATGACTTTCATAACAAGCTTATAAAGAACCATGCACAGACCGATGGACCAAGAATTCGTAAA
1246358 TGCTTCGGGGTTCTTGCGTTTAGGAACTAGGACGATCAAGGCCTTGTTGAGCTCCGGTTCAATAG
66 TGCTTCGGGGTTCTTGCGTTTAGGAACTAGGACGATCAAGGCCTTGTTGAGCTCCGGTTCAATAG
1246423 GCTTGTCGTTGAATGTGTCCTTAGCCCA
131 GCTTGTCGTTGAATGTGTCCTTAGCCCA
1246451 G
1 G
1246452 GGCCCACACA
Statistics
Matches: 159, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
158 159 1.00
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.28
Consensus pattern (158 bp):
GCTATGACTTTCATAACAAGCTTATAAAGAACCATGCACAGACCGATGGACCAAGAATTCGTAAA
TGCTTCGGGGTTCTTGCGTTTAGGAACTAGGACGATCAAGGCCTTGTTGAGCTCCGGTTCAATAG
GCTTGTCGTTGAATGTGTCCTTAGCCCA
Found at i:1248590 original size:21 final size:20
Alignment explanation
Indices: 1248544--1248591 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
1248534 ACACCATCTC
*
1248544 CATTTCAACATCAACACTAT
1 CATTTCAACATCAACACCAT
* *
1248564 CAATTTCATCCATCAAGACCAT
1 C-ATTTCA-ACATCAACACCAT
1248586 CATTTC
1 CATTTC
1248592 CGTAGCCATC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 11 0.48
22 11 0.48
ACGTcount: A:0.35, C:0.31, G:0.02, T:0.31
Consensus pattern (20 bp):
CATTTCAACATCAACACCAT
Found at i:1251415 original size:4 final size:4
Alignment explanation
Indices: 1251401--1251436 Score: 63
Period size: 4 Copynumber: 9.0 Consensus size: 4
1251391 ATCATGACAG
*
1251401 CATT TATT CATT CATT CATT CATT CATT CATT CATT
1 CATT CATT CATT CATT CATT CATT CATT CATT CATT
1251437 AACTCATGTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.25, C:0.22, G:0.00, T:0.53
Consensus pattern (4 bp):
CATT
Found at i:1254089 original size:22 final size:23
Alignment explanation
Indices: 1254063--1254116 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 23
1254053 AAACACCTTG
*
1254063 AAGAAGAACATTGAA-ACAATG-A
1 AAGAAGAAC-TTAAAGACAATGCA
*
1254085 AAGAACAACTTAAAGACAATGCA
1 AAGAAGAACTTAAAGACAATGCA
1254108 AATGAAGAA
1 AA-GAAGAA
1254117 TGTTTGGAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 4 0.15
22 14 0.54
23 3 0.12
24 5 0.19
ACGTcount: A:0.59, C:0.11, G:0.17, T:0.13
Consensus pattern (23 bp):
AAGAAGAACTTAAAGACAATGCA
Found at i:1254469 original size:24 final size:25
Alignment explanation
Indices: 1254442--1254497 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
1254432 ATTGATATTA
*
1254442 CAAAAGTTATG-TCATTTGAAGTTC
1 CAAAAGTTATGATCACTTGAAGTTC
1254466 CAAAAG--ATGCATCACTTGAAGTTC
1 CAAAAGTTATG-ATCACTTGAAGTTC
*
1254490 CAAGAGTT
1 CAAAAGTT
1254498 GTGTTCGTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
22 3 0.12
24 23 0.88
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (25 bp):
CAAAAGTTATGATCACTTGAAGTTC
Found at i:1278071 original size:22 final size:22
Alignment explanation
Indices: 1278041--1278097 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
1278031 TGAGAGAAAG
* *
1278041 GTATCGGTACCATAGTATATAA
1 GTATCGGTACCATAATATAGAA
*
1278063 GTATTGGTACCATAATATAGAA
1 GTATCGGTACCATAATATAGAA
*
1278085 GTATCGATACCAT
1 GTATCGGTACCAT
1278098 GGAAGGGGTA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.32
Consensus pattern (22 bp):
GTATCGGTACCATAATATAGAA
Found at i:1278574 original size:44 final size:43
Alignment explanation
Indices: 1278526--1278777 Score: 396
Period size: 44 Copynumber: 5.7 Consensus size: 43
1278516 ATAATGGTAT
*
1278526 ATTAAGGCATGAAAGGATTCCATAAATGAAATGCATAACTGTGC
1 ATTAAGGCATGAAAGGATGCCATAAATGAAATGCATAAC-GTGC
1278570 ATTAAGGCATGAAAGGATGCCATAAATGAAATGCATAACGGTGC
1 ATTAAGGCATGAAAGGATGCCATAAATGAAATGCATAAC-GTGC
*
1278614 ATTAAGGCATGAAATGATGCCATAAATGAAATGCATAACGGTGC
1 ATTAAGGCATGAAAGGATGCCATAAATGAAATGCATAAC-GTGC
* * *
1278658 ATTAAGGCATGGAAGAATGCCATAAATAAAATGCATAACGATGC
1 ATTAAGGCATGAAAGGATGCCATAAATGAAATGCATAACG-TGC
*
1278702 ATTAAGGCATGAAAGGATGCCATAAATGAAATGCATAACGATGT
1 ATTAAGGCATGAAAGGATGCCATAAATGAAATGCATAACG-TGC
1278746 ATTAAAGGCATGAAAGGATGCCATAAATGAAA
1 ATT-AAGGCATGAAAGGATGCCATAAATGAAA
1278778 GTAATGAATA
Statistics
Matches: 195, Mismatches: 11, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
43 1 0.01
44 166 0.85
45 28 0.14
ACGTcount: A:0.43, C:0.13, G:0.22, T:0.22
Consensus pattern (43 bp):
ATTAAGGCATGAAAGGATGCCATAAATGAAATGCATAACGTGC
Found at i:1290267 original size:2 final size:2
Alignment explanation
Indices: 1290262--1290288 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1290252 ACACACAAAC
1290262 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1290289 GTTATACCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1300685 original size:59 final size:59
Alignment explanation
Indices: 1300622--1301098 Score: 704
Period size: 59 Copynumber: 8.1 Consensus size: 59
1300612 TAGATTTATG
* * * * * *
1300622 ATCATTTTAGCACAC-AAGGTGTCCAATATGGAAATTTATATAGTTAGTATGAATTCCTT
1 ATCATGTTAGCACACGAA-GTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTT
* * * *
1300681 ATCATGTTAACACATGAAGTGCCCTATATGGAAATTAATACACTTAGTGTGAATTCCTT
1 ATCATGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTT
*
1300740 ATCATGTTAGCACACGAAGTGCCCCATATGGAAATTCATACACTTAGTATGAATTCCTT
1 ATCATGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTT
* * *
1300799 ATCATGTTAGCACACGAAGTGCCCTATATGGAAATTAATACACTTAGTGTGAATTCCAT
1 ATCATGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTT
* *
1300858 ATCATGTTAGCACACAAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTTCTT
1 ATCATGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTT
* * * * *
1300917 GTCATGTTAGTACACGAAGTGCCCTATATGAAAATTCATACGCTTAGTGTGAATTCCTT
1 ATCATGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTT
* * * *
1300976 ATCATGTTATCACACGAAGTTCCATATATAGAAATTCATACACTTAGTATGAATTCCTT
1 ATCATGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTT
*
1301035 ATCATGTTAGGACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTT
1 ATCATGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTT
1301094 ATCAT
1 ATCAT
1301099 TTGGTAATCA
Statistics
Matches: 373, Mismatches: 44, Indels: 2
0.89 0.11 0.00
Matches are distributed among these distances:
59 371 0.99
60 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.34
Consensus pattern (59 bp):
ATCATGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTT
Found at i:1301586 original size:95 final size:95
Alignment explanation
Indices: 1301418--1301643 Score: 265
Period size: 95 Copynumber: 2.4 Consensus size: 95
1301408 TTTGATTCCT
* * * * *
1301418 CAGTATCGATACTCC-CATCATGGTATCGATACTACCCTACTATGGTATATATACCCCTTTCCGA
1 CAGTATCGATAC-CCTTATCATGGTATCGATACTACCATACTATGGTACAGATACCCCTTTACGA
** * * *
1301482 TATTGATACCGAAATTAGATTTGATCTAACC
65 TATCAATACCAAAATTAGATTCGATATAACC
* * * *
1301513 CAGTATCGATACCCTTATCATGGTATCGATACTACTATACTGTGGTACCGATACCCCTTTATGAT
1 CAGTATCGATACCCTTATCATGGTATCGATACTACCATACTATGGTACAGATACCCCTTTACGAT
* *
1301578 ATCAATACCAAAATTAGGTTCGATATTACC
66 ATCAATACCAAAATTAGATTCGATATAACC
** *
1301608 TGGTATCGATACCCTTACCATGGTATCGATACTACC
1 CAGTATCGATACCCTTATCATGGTATCGATACTACC
1301644 TCGTTCAGTA
Statistics
Matches: 110, Mismatches: 20, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
94 2 0.02
95 108 0.98
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (95 bp):
CAGTATCGATACCCTTATCATGGTATCGATACTACCATACTATGGTACAGATACCCCTTTACGAT
ATCAATACCAAAATTAGATTCGATATAACC
Found at i:1301618 original size:16 final size:16
Alignment explanation
Indices: 1301597--1301644 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 16
1301587 AAAATTAGGT
1301597 TCGATATTACCTGGTA
1 TCGATATTACCTGGTA
1301613 TCGATACCCTTACCATGGTA
1 TCGATA---TTACC-TGGTA
*
1301633 TCGATACTACCT
1 TCGATATTACCT
1301645 CGTTCAGTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
16 7 0.26
17 4 0.15
19 5 0.19
20 11 0.41
ACGTcount: A:0.25, C:0.27, G:0.15, T:0.33
Consensus pattern (16 bp):
TCGATATTACCTGGTA
Found at i:1308343 original size:21 final size:21
Alignment explanation
Indices: 1308319--1308369 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
1308309 ACTCTCATTT
*
1308319 GTAGTATCGATATTTCGATGA
1 GTAGTATCGATAATTCGATGA
* *
1308340 GTAGTATCAATAATTCTATGA
1 GTAGTATCGATAATTCGATGA
*
1308361 GAAGTATCG
1 GTAGTATCG
1308370 GTACAACTTC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.33, C:0.10, G:0.22, T:0.35
Consensus pattern (21 bp):
GTAGTATCGATAATTCGATGA
Found at i:1311735 original size:21 final size:21
Alignment explanation
Indices: 1311709--1311755 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
1311699 TTTTTTTTGG
* *
1311709 ATTGAATTGGTATGAAATTGAT
1 ATTGAATTGCT-TGAAAATGAT
1311731 -TTGAATTGCTTGAAAATGAT
1 ATTGAATTGCTTGAAAATGAT
1311751 ATTGA
1 ATTGA
1311756 GAAGTTGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.36, C:0.02, G:0.21, T:0.40
Consensus pattern (21 bp):
ATTGAATTGCTTGAAAATGAT
Found at i:1319447 original size:168 final size:167
Alignment explanation
Indices: 1319169--1319501 Score: 551
Period size: 168 Copynumber: 2.0 Consensus size: 167
1319159 ATGTTATAAG
* *
1319169 TATTTTAGTTGCTCTGATAGATTAGTTATAAATCGATTTTATGATAATAAATTTGTATTGTGTTA
1 TATTTTAGTTGCTCTGATAGATGAGTTATAAATCGATTTTATGATAATAAATTAGTATTGTGTTA
* * *
1319234 ATATGGTTAGAATTAAACATAATTCCTACTATGAATGAATAGTATTTTATTAAATTATGTTTTTT
66 ATATGGTTAGAATTAAACATAATTACTACTATGAATGAATAGTATTTTATTAAATTAT-ATTTCT
1319299 AAAATTAATTGATTTGGTTTTTAAATTAGGCAGTTTTA
130 AAAATTAATTGATTTGGTTTTTAAATTAGGCAGTTTTA
* *
1319337 TATTTTAGTTGCTCTGATATATGATTTATAAATCGATTTTATGATAATAAATTAGTATTAGT-TT
1 TATTTTAGTTGCTCTGATAGATGAGTTATAAATCGATTTTATGATAATAAATTAGTATT-GTGTT
* * *
1319401 AATATGGTTAGCATTAAACATGATTACTACTATGCATGAATAGTATTTTATTAAATTATATTTCT
65 AATATGGTTAGAATTAAACATAATTACTACTATGAATGAATAGTATTTTATTAAATTATATTTCT
1319466 AAAATTAATTGATTTGGTTTTTAAATTAGGCAGTTT
130 AAAATTAATTGATTTGGTTTTTAAATTAGGCAGTTT
1319502 AATTTATTAT
Statistics
Matches: 154, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
167 40 0.26
168 112 0.73
169 2 0.01
ACGTcount: A:0.34, C:0.05, G:0.13, T:0.47
Consensus pattern (167 bp):
TATTTTAGTTGCTCTGATAGATGAGTTATAAATCGATTTTATGATAATAAATTAGTATTGTGTTA
ATATGGTTAGAATTAAACATAATTACTACTATGAATGAATAGTATTTTATTAAATTATATTTCTA
AAATTAATTGATTTGGTTTTTAAATTAGGCAGTTTTA
Found at i:1321070 original size:72 final size:72
Alignment explanation
Indices: 1320994--1321466 Score: 413
Period size: 72 Copynumber: 6.8 Consensus size: 72
1320984 TATGGTCTCT
*
1320994 TTTCATGCATTAATACATCCGTTCATGCATTTTAATCATGGCATCCTTTCATGCATTTTAGTTAT
1 TTTCATGCATTAATACATCCGTTCATGCATTTTAATTATGGCATCCTTTCATGCATTTTAGTTAT
1321059 GGCATCC
66 GGCATCC
* * *
1321066 TTTCATGCCTTAATGCATCCGTTCATGCATTTTAATTATGGAATCCTTTCATGCATTTTAGTTAT
1 TTTCATGCATTAATACATCCGTTCATGCATTTTAATTATGGCATCCTTTCATGCATTTTAGTTAT
*
1321131 GGAATCC
66 GGCATCC
* * *
1321138 TTTCATGCCTTAATGA-ATCTGTTCATGCATTTTAATTATGGCATCCTTTCATGC--CTTA---A
1 TTTCATGCATTAAT-ACATCCGTTCATGCATTTTAATTATGGCATCCTTTCATGCATTTTAGTTA
1321197 T-GCATCC
65 TGGCATCC
* * ** *
1321204 TTTCATGCATTTCAATTATGGCATTCTTTCATGC--CCT-A--AT-GCATCATTTCATGCATTTT
1 TTTCATGCA-TT-AA-TA---CATCCGTTCATGCATTTTAATTATGGCATCCTTTCATGCATTTT
1321263 AGTTATGGCATCC
60 AGTTATGGCATCC
* * **
1321276 TTTCATGCCTTAATGCATCCGTTCATGCATTTTAATTATGGCATCCTTTCAT--ACCTTA---AT
1 TTTCATGCATTAATACATCCGTTCATGCATTTTAATTATGGCATCCTTTCATGCATTTTAGTTAT
*
1321336 -GCATCA
66 GGCATCC
* * * ** *
1321342 ATTCATGCATTTTAAT-TAT--GGT-AT-CATTTCATGCTTAAT-GCATCATTTCATGCATTTTA
1 TTTCATGCA--TTAATACATCCGTTCATGCATTT--TAATT-ATGGCATCCTTTCATGCATTTTA
1321401 GTTATGGCATCC
61 GTTATGGCATCC
* *
1321413 TTTCATGCGTTAATGA-ATCCGTTCATGCATTTTAGTTATGGCATCCTTTCATGC
1 TTTCATGCATTAAT-ACATCCGTTCATGCATTTTAATTATGGCATCCTTTCATGC
1321467 CTTAATGCAT
Statistics
Matches: 319, Mismatches: 44, Indels: 76
0.73 0.10 0.17
Matches are distributed among these distances:
63 5 0.02
64 2 0.01
65 16 0.05
66 51 0.16
67 14 0.04
68 12 0.04
69 9 0.03
70 14 0.04
71 20 0.06
72 169 0.53
73 2 0.01
74 5 0.02
ACGTcount: A:0.23, C:0.21, G:0.13, T:0.43
Consensus pattern (72 bp):
TTTCATGCATTAATACATCCGTTCATGCATTTTAATTATGGCATCCTTTCATGCATTTTAGTTAT
GGCATCC
Found at i:1321156 original size:46 final size:46
Alignment explanation
Indices: 1321108--1321499 Score: 565
Period size: 46 Copynumber: 8.5 Consensus size: 46
1321098 TAATTATGGA
* * *
1321108 ATCCTTTCATGCATTTTAGTTATGGAATCCTTTCATGCCTTAATGA
1 ATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGC
1321154 AT-CTGTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGC
1 ATCCT-TTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGC
* * *
1321200 ATCCTTTCATGCATTTCAATTATGGCATTCTTTCATGCCCTAATGC
1 ATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGC
* *
1321246 ATCATTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGC
1 ATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGC
* *
1321292 ATCCGTTCATGCATTTTAATTATGGCATCCTTTCATACCTTAATGC
1 ATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGC
** * *
1321338 ATCAATTCATGCATTTTAATTATGGTATCATTTCATG-CTTAATGC
1 ATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGC
* * * *
1321383 ATCATTTCATGCATTTTAGTTATGGCATCCTTTCATGCGTTAATGA
1 ATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGC
* *
1321429 ATCCGTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGC
1 ATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGC
1321475 ATCCGTTT-ATGCATTTTAATTATGG
1 ATCC-TTTCATGCATTTTAATTATGG
1321500 ATTCGGTTTA
Statistics
Matches: 310, Mismatches: 32, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
45 43 0.14
46 263 0.85
47 4 0.01
ACGTcount: A:0.23, C:0.21, G:0.13, T:0.43
Consensus pattern (46 bp):
ATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGC
Found at i:1321281 original size:118 final size:115
Alignment explanation
Indices: 1320976--1321283 Score: 331
Period size: 118 Copynumber: 2.6 Consensus size: 115
1320966 TTATTCATTG
* *
1320976 ATTTCAATTATGG-TCTCTTTTCATGCATTAATACATCCGTTCATGCATTTTAATCATGGCATCC
1 ATTTCAATTATGGAT-TC-TTTCATGCATTAATGCATCCTTTCATGCATTTT-AT-ATGGCATCC
*
1321040 TTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGC
62 TTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGC
* * * * *
1321094 ATTTTAATTATGGAATCCTTTCATGCATTTTAGTTATGGAATCCTTTCATGC--CTTA-AT-GAA
1 ATTTCAATTATGG-ATTCTTTCATGCA--TTA---AT-GCATCCTTTCATGCATTTTATATGGCA
*
1321155 T-CTGTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
59 TCCT-TTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGC
** *
1321212 ATTTCAATTATGGCATTCTTTCATGCCCTAATGCATCATTTCATGCATTTTAGTTATGGCATCCT
1 ATTTCAATTATGG-ATTCTTTCATGCATTAATGCATCCTTTCATGCATTTTA--TATGGCATCCT
1321277 TTCATGC
63 TTCATGC
1321284 CTTAATGCAT
Statistics
Matches: 156, Mismatches: 18, Indels: 32
0.76 0.09 0.16
Matches are distributed among these distances:
112 12 0.08
113 2 0.01
114 3 0.02
116 2 0.01
117 4 0.03
118 108 0.69
119 5 0.03
120 4 0.03
121 1 0.01
122 2 0.01
123 2 0.01
124 11 0.07
ACGTcount: A:0.23, C:0.21, G:0.13, T:0.43
Consensus pattern (115 bp):
ATTTCAATTATGGATTCTTTCATGCATTAATGCATCCTTTCATGCATTTTATATGGCATCCTTTC
ATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGC
Found at i:1321452 original size:137 final size:138
Alignment explanation
Indices: 1321112--1321503 Score: 637
Period size: 137 Copynumber: 2.9 Consensus size: 138
1321102 TATGGAATCC
* *
1321112 TTTCATGCATTTTAGTTATGGAATCCTTTCATGCCTTAATGAATCTGTTCATGCATTTTAATTAT
1 TTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGAATCCGTTCATGCATTTTAATTAT
* *
1321177 GGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCAATTATGGCATTCTTTCATGCCCTA
66 GGCATCCTTTCATGCCTTAATGCATCCATTCATGCATTTTAATTATGGCATTCTTTCATGCCCTA
1321242 ATGCATCA
131 ATGCATCA
*
1321250 TTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTAATTAT
1 TTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGAATCCGTTCATGCATTTTAATTAT
* * * *
1321315 GGCATCCTTTCATACCTTAATGCATCAATTCATGCATTTTAATTATGGTA-TCATTTCATG-CTT
66 GGCATCCTTTCATGCCTTAATGCATCCATTCATGCATTTTAATTATGGCATTC-TTTCATGCCCT
1321378 AATGCATCA
130 AATGCATCA
* *
1321387 TTTCATGCATTTTAGTTATGGCATCCTTTCATGCGTTAATGAATCCGTTCATGCATTTTAGTTAT
1 TTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGAATCCGTTCATGCATTTTAATTAT
* *
1321452 GGCATCCTTTCATGCCTTAATGCATCCGTTTATGCATTTTAATTATGG-ATTC
66 GGCATCCTTTCATGCCTTAATGCATCCATTCATGCATTTTAATTATGGCATTC
1321504 GGTTTAGAGC
Statistics
Matches: 236, Mismatches: 16, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
136 1 0.00
137 121 0.51
138 114 0.48
ACGTcount: A:0.23, C:0.20, G:0.13, T:0.43
Consensus pattern (138 bp):
TTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGAATCCGTTCATGCATTTTAATTAT
GGCATCCTTTCATGCCTTAATGCATCCATTCATGCATTTTAATTATGGCATTCTTTCATGCCCTA
ATGCATCA
Found at i:1337793 original size:68 final size:68
Alignment explanation
Indices: 1337684--1337820 Score: 256
Period size: 68 Copynumber: 2.0 Consensus size: 68
1337674 ATAAAGCTCT
* *
1337684 ACTTGTCTTCTAAGTTCATCGCATGATTTGGATCTTTTCTTTTTCACTCAATTCTTTGCTTGTTT
1 ACTTGTCTTCCAAGTTCATCGCATGATTTGGATCTTTTCTTTTTCACTCAATTCTTTGCTTGATT
1337749 AAG
66 AAG
1337752 ACTTGTCTTCCAAGTTCATCGCATGATTTGGATCTTTTCTTTTTCACTCAATTCTTTGCTTGATT
1 ACTTGTCTTCCAAGTTCATCGCATGATTTGGATCTTTTCTTTTTCACTCAATTCTTTGCTTGATT
1337817 AAG
66 AAG
1337820 A
1 A
1337821 ACCAAGATGT
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 67 1.00
ACGTcount: A:0.19, C:0.20, G:0.13, T:0.48
Consensus pattern (68 bp):
ACTTGTCTTCCAAGTTCATCGCATGATTTGGATCTTTTCTTTTTCACTCAATTCTTTGCTTGATT
AAG
Found at i:1339426 original size:23 final size:23
Alignment explanation
Indices: 1339369--1339426 Score: 107
Period size: 23 Copynumber: 2.5 Consensus size: 23
1339359 TGTCCAGAGA
*
1339369 TTATTGTGACACATGCCAACAAG
1 TTATTGTGACATATGCCAACAAG
1339392 TTATTGTGACATATGCCAACAAG
1 TTATTGTGACATATGCCAACAAG
1339415 TTATTGTGACAT
1 TTATTGTGACAT
1339427 GTGTCATCAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (23 bp):
TTATTGTGACATATGCCAACAAG
Found at i:1346395 original size:35 final size:36
Alignment explanation
Indices: 1346349--1346424 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
1346339 CTGAACTGTA
* *
1346349 GGGATAATCGAAATGTA-CCCGTATGAATAATTGTG
1 GGGATAATCGAAATATACCCCGTATGAATAATCGTG
* * *
1346384 GGGATAATCGAATTATACCCCGTGTGAATGATCGTG
1 GGGATAATCGAAATATACCCCGTATGAATAATCGTG
1346420 GGGAT
1 GGGAT
1346425 CCCCGAAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
35 15 0.43
36 20 0.57
ACGTcount: A:0.30, C:0.13, G:0.29, T:0.28
Consensus pattern (36 bp):
GGGATAATCGAAATATACCCCGTATGAATAATCGTG
Found at i:1357320 original size:27 final size:26
Alignment explanation
Indices: 1357263--1357322 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 26
1357253 GATTATTTAT
*
1357263 TTAATGTATTTATTTATCTATCACTGC
1 TTAAT-TATTTATTTATCTATCACTGA
*
1357290 TTAATTATCTTATTTATTTAT-ACTTGA
1 TTAATTAT-TTATTTATCTATCAC-TGA
1357317 TTAATT
1 TTAATT
1357323 TTATTTCATG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 5 0.17
27 24 0.83
ACGTcount: A:0.28, C:0.10, G:0.05, T:0.57
Consensus pattern (26 bp):
TTAATTATTTATTTATCTATCACTGA
Found at i:1365188 original size:22 final size:22
Alignment explanation
Indices: 1365144--1365203 Score: 70
Period size: 23 Copynumber: 2.8 Consensus size: 22
1365134 TTGGTGCAGA
*
1365144 GGGAATCGA-TCCCCCCTTGA-
1 GGGAACCGATTCCCCCCTTGAG
* *
1365164 GGGAACCGATTTCCCCTTTGAAG
1 GGGAACCGATTCCCCCCTTG-AG
1365187 GGGAACCGATTCCCCCC
1 GGGAACCGATTCCCCCC
1365204 ACAGGGGAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 8 0.25
21 8 0.25
22 1 0.03
23 15 0.47
ACGTcount: A:0.20, C:0.35, G:0.25, T:0.20
Consensus pattern (22 bp):
GGGAACCGATTCCCCCCTTGAG
Found at i:1372045 original size:85 final size:85
Alignment explanation
Indices: 1371902--1372152 Score: 342
Period size: 85 Copynumber: 3.0 Consensus size: 85
1371892 TATGACGCAC
* * * * **
1371902 ATTTATGACACTCATTTATGACATGCATTGAGCGTCATTGAAGCTGCCGTCATAAATAAAGATGA
1 ATTTATGACACTCATGTATGACTTACATTGAGTGTCATTGAAGCACCCGTCATAAATAAAGATGA
*
1371967 CACACAATTGTGTGTCATAA
66 CACACATTTGTGTGTCATAA
* * * *
1371987 ATTTATGACACTCATGTATGACTTACATTGCGTGTCATGGAAGCCCCCGTCATAAATAAAGTTGA
1 ATTTATGACACTCATGTATGACTTACATTGAGTGTCATTGAAGCACCCGTCATAAATAAAGATGA
*
1372052 AACACATTTGTGTGTCATAA
66 CACACATTTGTGTGTCATAA
* * * *
1372072 ATTTATGACACGCATGTATGACTTACATTGTGTGTCATTGAAGCACACGTCATTAAA-AAAGATA
1 ATTTATGACACTCATGTATGACTTACATTGAGTGTCATTGAAGCACCCGTCA-TAAATAAAGATG
1372136 ACACACATTTGTGTGTC
65 ACACACATTTGTGTGTC
1372153 GTGATTGTAT
Statistics
Matches: 146, Mismatches: 19, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
85 142 0.97
86 4 0.03
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (85 bp):
ATTTATGACACTCATGTATGACTTACATTGAGTGTCATTGAAGCACCCGTCATAAATAAAGATGA
CACACATTTGTGTGTCATAA
Found at i:1372179 original size:2 final size:2
Alignment explanation
Indices: 1372172--1372204 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1372162 TTTTGTAAAT
1372172 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1372205 TGTAGATTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1373228 original size:12 final size:12
Alignment explanation
Indices: 1373211--1373236 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1373201 ATATATTGAT
1373211 AATCAAATGAAA
1 AATCAAATGAAA
1373223 AATCAAATGAAA
1 AATCAAATGAAA
1373235 AA
1 AA
1373237 ACAAGCCCGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.08, G:0.08, T:0.15
Consensus pattern (12 bp):
AATCAAATGAAA
Found at i:1380547 original size:14 final size:14
Alignment explanation
Indices: 1380528--1380590 Score: 126
Period size: 14 Copynumber: 4.5 Consensus size: 14
1380518 AACTAAAAGC
1380528 ATCAAACCCATTAA
1 ATCAAACCCATTAA
1380542 ATCAAACCCATTAA
1 ATCAAACCCATTAA
1380556 ATCAAACCCATTAA
1 ATCAAACCCATTAA
1380570 ATCAAACCCATTAA
1 ATCAAACCCATTAA
1380584 ATCAAAC
1 ATCAAAC
1380591 AAAATAGAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 49 1.00
ACGTcount: A:0.51, C:0.29, G:0.00, T:0.21
Consensus pattern (14 bp):
ATCAAACCCATTAA
Found at i:1383654 original size:19 final size:20
Alignment explanation
Indices: 1383588--1383654 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 20
1383578 GGACATAAAA
*
1383588 TATCAAAACT-TTAAGTAAAG
1 TATCAAAACTCTTTAG-AAAG
* * *
1383608 TTTCAAAACTCTTGAGATAG
1 TATCAAAACTCTTTAGAAAG
*
1383628 TTTCAAAACTCTTTA-AAAG
1 TATCAAAACTCTTTAGAAAG
1383647 TATCAAAA
1 TATCAAAA
1383655 AAATTTTGGG
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
19 10 0.25
20 26 0.65
21 4 0.10
ACGTcount: A:0.45, C:0.13, G:0.09, T:0.33
Consensus pattern (20 bp):
TATCAAAACTCTTTAGAAAG
Found at i:1384494 original size:201 final size:201
Alignment explanation
Indices: 1384031--1384483 Score: 584
Period size: 201 Copynumber: 2.3 Consensus size: 201
1384021 GTTGTCACCA
* * *
1384031 AAATACGACTAGACATCCTCATCAAGTAGGAATAATGTCATCCACTGATTAGACCTCCTCAACAT
1 AAATACGACTAGACATCATCATCAAGTAGGAACAATGTCATCCACTGACTAGACCTCCTCAACAT
* *
1384096 GAAGGGTCAATGTCATCAGAAGTGACCAGATCTCCTCATCACGTAGGAGCCGTGTCATTTCCAAA
66 GAAGGGTAAATGTCATCAGAAGTGACCAGATCTCCTCATCACGTAAGAGCCGTGTCATTTCCAAA
* *** * * * *
1384161 ATCAAGTTATCTCCAGGAAATTAGACTTCCTCAACGCTAAGGAAAAGTGTTGTCTTCAGATACAT
131 ATCAAGTTATCTCCAGGAAATCAGACTTCCTCAACAAGAAGGAAAAGTGTTGCCTTCAAATAAAC
**
1384226 TTTTTC
196 TCCTTC
** * * *
1384232 AAATAAAACTAGACTTCATCATCAAGTAGGAACAATGTCCTCCACTGACTAGTCCTCCTCAACAT
1 AAATACGACTAGACATCATCATCAAGTAGGAACAATGTCATCCACTGACTAGACCTCCTCAACAT
* * * *
1384297 GAAGGAG-AAATGTTATCGGAAGTGACTAGATCTCCTCATCACGTAAGAGCCGTGTCGTTTCCAA
66 GAAGG-GTAAATGTCATCAGAAGTGACCAGATCTCCTCATCACGTAAGAGCCGTGTCATTTCCAA
* * * * * *
1384361 AATTAAGTTATCTCCAGGCAATCAGATTTCCTCAACAAGAAGGAACATTGTTGCCTTTAAATAAA
130 AATCAAGTTATCTCCAGGAAATCAGACTTCCTCAACAAGAAGGAAAAGTGTTGCCTTCAAATAAA
1384426 CTCCTTC
195 CTCCTTC
* * * *
1384433 AAATACGACTAGACGTCATCATCAATTAGGAACAATGTCGTCCACTAACTA
1 AAATACGACTAGACATCATCATCAAGTAGGAACAATGTCATCCACTGACTA
1384484 AAATTCCTCA
Statistics
Matches: 215, Mismatches: 36, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
201 214 1.00
202 1 0.00
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (201 bp):
AAATACGACTAGACATCATCATCAAGTAGGAACAATGTCATCCACTGACTAGACCTCCTCAACAT
GAAGGGTAAATGTCATCAGAAGTGACCAGATCTCCTCATCACGTAAGAGCCGTGTCATTTCCAAA
ATCAAGTTATCTCCAGGAAATCAGACTTCCTCAACAAGAAGGAAAAGTGTTGCCTTCAAATAAAC
TCCTTC
Found at i:1385021 original size:17 final size:17
Alignment explanation
Indices: 1384995--1385044 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
1384985 TTTGTCCACT
1384995 TTTTTCATTATTATTTTA
1 TTTTT-ATTATTATTTTA
*
1385013 TTTTTATTATTATTACTA
1 TTTTTATTATTATT-TTA
*
1385031 TTATTA-TATTATTT
1 TTTTTATTATTATTT
1385045 AATATTACAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
17 16 0.57
18 12 0.43
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTTTATTATTATTTTA
Found at i:1385042 original size:8 final size:8
Alignment explanation
Indices: 1385003--1385083 Score: 56
Period size: 8 Copynumber: 9.4 Consensus size: 8
1384993 CTTTTTTCAT
*
1385003 TATTATTT
1 TATTATTA
*
1385011 TATTTTTA
1 TATTATTA
1385019 TTATTATTA
1 -TATTATTA
1385028 CTATTATTA
1 -TATTATTA
1385037 TATTATT-
1 TATTATTA
*
1385044 TAATATTA
1 TATTATTA
*
1385052 CATTATTAA
1 TATTATT-A
1385061 TATATATATA
1 TAT-TAT-TA
1385071 TATATATATA
1 TAT-TAT-TA
1385081 TAT
1 TAT
1385084 ATTGCAGGCC
Statistics
Matches: 60, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
7 6 0.10
8 18 0.30
9 18 0.30
10 17 0.28
11 1 0.02
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.59
Consensus pattern (8 bp):
TATTATTA
Found at i:1385050 original size:15 final size:14
Alignment explanation
Indices: 1385003--1385069 Score: 53
Period size: 15 Copynumber: 4.6 Consensus size: 14
1384993 CTTTTTTCAT
* **
1385003 TATTATTTTATTTT
1 TATTATATTATTAA
* *
1385017 TATTATTATTACTAT
1 TATTA-TATTATTAA
1385032 TATTATATTATTTAA
1 TATTATATTA-TTAA
*
1385047 TATTACATTATTAA
1 TATTATATTATTAA
1385061 TATATATAT
1 TAT-TATAT
1385070 ATATATATAT
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
14 17 0.40
15 26 0.60
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (14 bp):
TATTATATTATTAA
Found at i:1385056 original size:29 final size:29
Alignment explanation
Indices: 1385001--1385079 Score: 70
Period size: 29 Copynumber: 2.7 Consensus size: 29
1384991 CACTTTTTTC
* * *
1385001 ATTATTATTTTATTTTTATTATTATTACT
1 ATTATTATATTATTTATATTATCATTACT
*
1385030 ATTATTATATTATTTAATATTA-CATTATT
1 ATTATTATATTATTT-ATATTATCATTACT
* *
1385059 AATATATATATATATATATAT
1 ATTAT-TATAT-TATTTATAT
1385080 ATATATTGCA
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
29 23 0.56
30 14 0.34
31 4 0.10
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (29 bp):
ATTATTATATTATTTATATTATCATTACT
Found at i:1385058 original size:26 final size:26
Alignment explanation
Indices: 1384999--1385065 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 26
1384989 TCCACTTTTT
* *
1384999 TCATTATTATTTTATTTTTATTATTA
1 TCATTATTATTATATTTTTAATATTA
* *
1385025 TTACTATTATTATATTATTTAATATTA
1 TCATTATTATTATATT-TTTAATATTA
*
1385052 -CATTATTAATATAT
1 TCATTATTATTATAT
1385066 ATATATATAT
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
26 24 0.73
27 9 0.27
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.61
Consensus pattern (26 bp):
TCATTATTATTATATTTTTAATATTA
Found at i:1385059 original size:3 final size:3
Alignment explanation
Indices: 1385001--1385043 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
1384991 CACTTTTTTC
* *
1385001 ATT ATT ATT -TT ATT TTT ATT ATT ATT ACT ATT ATT A-T ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1385044 TAATATTACA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
2 4 0.12
3 30 0.88
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:1385067 original size:2 final size:2
Alignment explanation
Indices: 1385060--1385085 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1385050 TACATTATTA
1385060 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
1385086 TGCAGGCCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1385067 original size:18 final size:17
Alignment explanation
Indices: 1385021--1385086 Score: 50
Period size: 15 Copynumber: 3.9 Consensus size: 17
1385011 TATTTTTATT
*
1385021 ATTATTACTAT-TATTAT
1 ATTATTA-TATATATTAC
1385038 ATTATT-TA-ATATTAC
1 ATTATTATATATATTAC
*
1385053 ATTATTA-ATATATATAT
1 ATTATTATATATAT-TAC
1385070 ATATATATATATATATT
1 AT-TAT-TATATATATT
1385087 GCAGGCCCAA
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
15 14 0.35
16 4 0.10
17 10 0.25
18 3 0.08
19 3 0.08
20 6 0.15
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTATTATATATATTAC
Done.