Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008166.1 Hibiscus syriacus cultivar Beakdansim tig00110747_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: 2544747
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 10
Found at i:1075232 original size:2 final size:2
Alignment explanation
Indices: 1075225--1075252 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1075215 TTAGCAGCTT
1075225 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1075253 AGCAAGGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1076960 original size:2 final size:2
Alignment explanation
Indices: 1076918--1076942 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1076908 ATTAAATTTA
1076918 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 A
1076943 ACTTTACTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1078046 original size:51 final size:51
Alignment explanation
Indices: 1077950--1078048 Score: 137
Period size: 51 Copynumber: 1.9 Consensus size: 51
1077940 TGCACTAAAG
* *
1077950 TGCCAAAATGCACCATTATGCATTTAACTTTCATTAGTGGAACCTTTTTTT
1 TGCCAAAATGCACCATTATGCATTTAAATTTCATTAATGGAACCTTTTTTT
* **
1078001 TGCCAATATGCACTGTTATGCATTTAAATTTCATTAAT-GACACCTTTT
1 TGCCAAAATGCACCATTATGCATTTAAATTTCATTAATGGA-ACCTTTT
1078049 ATGACGATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
50 2 0.05
51 40 0.95
ACGTcount: A:0.28, C:0.19, G:0.11, T:0.41
Consensus pattern (51 bp):
TGCCAAAATGCACCATTATGCATTTAAATTTCATTAATGGAACCTTTTTTT
Found at i:1078117 original size:45 final size:45
Alignment explanation
Indices: 1078029--1078326 Score: 400
Period size: 45 Copynumber: 6.6 Consensus size: 45
1078019 TGCATTTAAA
* * * *
1078029 TTTCATTAATGACACCTTTTATGACGATAATGTACCGTTATGCAT
1 TTTCATTAGTGGCACCTTTTATGCCGATAATGCACCGTTATGCAT
*
1078074 TTTTATTAGTGGCA-CTTTCTATGCCGATAATGCACCGTTATGCAT
1 TTTCATTAGTGGCACCTTT-TATGCCGATAATGCACCGTTATGCAT
* * *
1078119 TTTCATTAGTGACACCTTTTATGCTGATAATGCACTGTTATGCAT
1 TTTCATTAGTGGCACCTTTTATGCCGATAATGCACCGTTATGCAT
* * * *
1078164 TTTTATTAGTGGTACCTTTTATGCTGATAATGCACCGTTATGAAT
1 TTTCATTAGTGGCACCTTTTATGCCGATAATGCACCGTTATGCAT
* ** * *
1078209 TTTTATTAGTGGCACCTTTTATGCTTATAATTCACCATTATGCAT
1 TTTCATTAGTGGCACCTTTTATGCCGATAATGCACCGTTATGCAT
*
1078254 TTTCATTAGTGGCACCTTTTATGCCGATAATACACCGTTATGCAT
1 TTTCATTAGTGGCACCTTTTATGCCGATAATGCACCGTTATGCAT
* *
1078299 TTTCATTAGTGGCACATTTTATGTCGAT
1 TTTCATTAGTGGCACCTTTTATGCCGAT
1078327 TTCATAGATT
Statistics
Matches: 225, Mismatches: 26, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
44 4 0.02
45 217 0.96
46 4 0.02
ACGTcount: A:0.24, C:0.18, G:0.15, T:0.42
Consensus pattern (45 bp):
TTTCATTAGTGGCACCTTTTATGCCGATAATGCACCGTTATGCAT
Found at i:1078761 original size:22 final size:20
Alignment explanation
Indices: 1078711--1078762 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
1078701 GTCTTAATAT
* *
1078711 TATCAGTACGTCTATAATTG
1 TATCAATACTTCTATAATTG
1078731 TATCAATACTTCTATAATATGG
1 TATCAATACTTCTATAAT-T-G
*
1078753 TATCGATACT
1 TATCAATACT
1078763 CCCTTTCAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 16 0.59
21 1 0.04
22 10 0.37
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (20 bp):
TATCAATACTTCTATAATTG
Found at i:1084955 original size:45 final size:45
Alignment explanation
Indices: 1084845--1085192 Score: 385
Period size: 45 Copynumber: 7.6 Consensus size: 45
1084835 TGCATTTAAC
** *
1084845 TTTCATTAGTGGCACCTTTTTATGTTGAT-ATGCACCGTTATGCATTT
1 TTTCATTAGTGGCACC-TTTTATGCCGATAATGCACCATTATGCA--T
* * * * *
1084892 AACTTTCATTAATGGCACCTTATATGGCAATAATGCACCATTATACAT
1 ---TTTCATTAGTGGCACCTTTTATGCCGATAATGCACCATTATGCAT
** *
1084940 TTTTGTTAGTGGCACCTTTTATGCCGATAATGCTCCATTATGCAT
1 TTTCATTAGTGGCACCTTTTATGCCGATAATGCACCATTATGCAT
* * * * * *
1084985 TTTCATTAGTGGCACCATTTATGTCAATAATTCATCGTTATGCAAT
1 TTTCATTAGTGGCACCTTTTATGCCGATAATGCACCATTATGC-AT
* * **
1085031 TTTCATTAGTGGCACCTTTTATGTCGATAATGCACCGTTATTTAT
1 TTTCATTAGTGGCACCTTTTATGCCGATAATGCACCATTATGCAT
* * *
1085076 TTTCATTAGTGACACCTTTTATGCCTATAATGCACCATTATTCAT
1 TTTCATTAGTGGCACCTTTTATGCCGATAATGCACCATTATGCAT
* *
1085121 TCTCATTAGTGGCACCTTTTATACCGATAATGCACCATTATGCAT
1 TTTCATTAGTGGCACCTTTTATGCCGATAATGCACCATTATGCAT
1085166 TTTCATTAGT-GCACCTTTTATGCCGAT
1 TTTCATTAGTGGCACCTTTTATGCCGAT
1085193 TTCATATATT
Statistics
Matches: 254, Mismatches: 42, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
44 16 0.06
45 162 0.64
46 39 0.15
48 1 0.00
49 8 0.03
50 28 0.11
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.41
Consensus pattern (45 bp):
TTTCATTAGTGGCACCTTTTATGCCGATAATGCACCATTATGCAT
Found at i:1085093 original size:136 final size:135
Alignment explanation
Indices: 1084895--1085192 Score: 382
Period size: 136 Copynumber: 2.2 Consensus size: 135
1084885 TGCATTTAAC
* * * * ** *
1084895 TTTCATTAATGGCACCTTATATGGCAATAATGCACCATTATACATTTTTGTTAGTGGCACCTTTT
1 TTTCATTAGTGGCACCTTTTATGCCGATAATGCACCATTATACATTTTCATTAGTGACACCTTTT
* * ** * * *
1084960 ATGCCGATAATGCTCCATTATGCATTTTCATTAGTGGCACCATTTATGTCAATAATTCATCGTTA
66 ATGCCGATAATGCACCATTATGCATTCTCATTAGTGGCACCATTTATACCAATAATGCACCATTA
1085025 TGCAAT
131 TGC-AT
* * **
1085031 TTTCATTAGTGGCACCTTTTATGTCGATAATGCACCGTTATTTATTTTCATTAGTGACACCTTTT
1 TTTCATTAGTGGCACCTTTTATGCCGATAATGCACCATTATACATTTTCATTAGTGACACCTTTT
* * * *
1085096 ATGCCTATAATGCACCATTATTCATTCTCATTAGTGGCACCTTTTATACCGATAATGCACCATTA
66 ATGCCGATAATGCACCATTATGCATTCTCATTAGTGGCACCATTTATACCAATAATGCACCATTA
1085161 TGCAT
131 TGCAT
1085166 TTTCATTAGT-GCACCTTTTATGCCGAT
1 TTTCATTAGTGGCACCTTTTATGCCGAT
1085193 TTCATATATT
Statistics
Matches: 140, Mismatches: 22, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
134 16 0.11
135 12 0.09
136 112 0.80
ACGTcount: A:0.26, C:0.20, G:0.13, T:0.41
Consensus pattern (135 bp):
TTTCATTAGTGGCACCTTTTATGCCGATAATGCACCATTATACATTTTCATTAGTGACACCTTTT
ATGCCGATAATGCACCATTATGCATTCTCATTAGTGGCACCATTTATACCAATAATGCACCATTA
TGCAT
Found at i:1085161 original size:181 final size:184
Alignment explanation
Indices: 1084845--1085187 Score: 498
Period size: 181 Copynumber: 1.9 Consensus size: 184
1084835 TGCATTTAAC
* *
1084845 TTTCATTAGTGGCACCTTTTTATGTTGATATGCACCGTTATGCATTTAACTTTCATTAATGGCAC
1 TTTCATTAGTGGCACCTTTTTATGTCGATATGCACCGTTAT-CATTTAACTTTCATTAATGACAC
* * ** * *
1084910 CTTATATGGCAATAATGCACCATTATACATTTTTGTTAGTGGCACCTTTTATGCCGATAATGCTC
65 CTTATATGCCAATAATGCACCATTATACATTCTCATTAGTGGCACCTTTTATACCGATAATGCAC
1084975 CATTATGCATTTTCATTAGTGGCACCATTTATGTCAATAATTCATCGTTATGCAAT
130 CATTATGCATTTTCATTAGT-GCACCATTTATGTCAATAATTCATCGTTATGCAAT
* *
1085031 TTTCATTAGTGGCACC-TTTTATGTCGATAATGCACCG-T-T-ATTT-ATTTTCATTAGTGACAC
1 TTTCATTAGTGGCACCTTTTTATGTCGAT-ATGCACCGTTATCATTTAACTTTCATTAATGACAC
* * *
1085091 CTTTTATGCCTATAATGCACCATTATTCATTCTCATTAGTGGCACCTTTTATACCGATAATGCAC
65 CTTATATGCCAATAATGCACCATTATACATTCTCATTAGTGGCACCTTTTATACCGATAATGCAC
*
1085156 CATTATGCATTTTCATTAGTGCACCTTTTATG
130 CATTATGCATTTTCATTAGTGCACCATTTATG
1085188 CCGATTTCAT
Statistics
Matches: 142, Mismatches: 14, Indels: 8
0.87 0.09 0.05
Matches are distributed among these distances:
180 11 0.08
181 90 0.63
182 4 0.03
184 1 0.01
185 12 0.08
186 24 0.17
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.41
Consensus pattern (184 bp):
TTTCATTAGTGGCACCTTTTTATGTCGATATGCACCGTTATCATTTAACTTTCATTAATGACACC
TTATATGCCAATAATGCACCATTATACATTCTCATTAGTGGCACCTTTTATACCGATAATGCACC
ATTATGCATTTTCATTAGTGCACCATTTATGTCAATAATTCATCGTTATGCAAT
Found at i:1087121 original size:34 final size:30
Alignment explanation
Indices: 1087083--1087151 Score: 86
Period size: 30 Copynumber: 2.2 Consensus size: 30
1087073 TTGATATAAC
1087083 AATTTAAGGCAAAATGGTTTTTGGACTTGAATTG
1 AATTTAA--CAAAAT-GTTTTTGGACTT-AATTG
*
1087117 AATTT-ATAAAATGTTTTTGGACTTAATTG
1 AATTTAACAAAATGTTTTTGGACTTAATTG
1087146 AATTTA
1 AATTTA
1087152 TTAAAAGTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
29 10 0.30
30 12 0.36
31 5 0.15
33 1 0.03
34 5 0.15
ACGTcount: A:0.35, C:0.04, G:0.17, T:0.43
Consensus pattern (30 bp):
AATTTAACAAAATGTTTTTGGACTTAATTG
Found at i:1087133 original size:30 final size:30
Alignment explanation
Indices: 1087093--1087162 Score: 108
Period size: 30 Copynumber: 2.3 Consensus size: 30
1087083 AATTTAAGGC
1087093 AAAATGGTTTTTGGACTTGAATTGAATTTA-T
1 AAAAT-GTTTTTGGACTT-AATTGAATTTATT
1087124 AAAATGTTTTTGGACTTAATTGAATTTATT
1 AAAATGTTTTTGGACTTAATTGAATTTATT
1087154 AAAA-GTTTT
1 AAAATGTTTT
1087163 AAAAGGTTTC
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
29 16 0.42
30 17 0.45
31 5 0.13
ACGTcount: A:0.34, C:0.03, G:0.16, T:0.47
Consensus pattern (30 bp):
AAAATGTTTTTGGACTTAATTGAATTTATT
Found at i:1087257 original size:21 final size:21
Alignment explanation
Indices: 1087231--1087393 Score: 137
Period size: 22 Copynumber: 7.7 Consensus size: 21
1087221 AGGGGGTCAA
*
1087231 AGTGCACCCATGCA-CCCTTGC
1 AGTGCATCCATGCATCCC-TGC
1087252 AGTGCATCCATGCATCCCTGCC
1 AGTGCATCCATGCATCCCTG-C
1087274 A-TGCATCCATGCATCCCTGC
1 AGTGCATCCATGCATCCCTGC
*
1087294 AGTGCATTCATGCA--CCTGCAC
1 AGTGCATCCATGCATCCCTG--C
1087315 TAGTGCATCCATGCA--CCTGCAC
1 -AGTGCATCCATGCATCCCTG--C
1087337 TAGTGCATCCATGCA--CCTGCAC
1 -AGTGCATCCATGCATCCCTG--C
*
1087359 TAGTGCATCCATGCA-CCATGC
1 -AGTGCATCCATGCATCCCTGC
1087380 AGTGCATCCATGCA
1 AGTGCATCCATGCA
1087394 CTCAAACACC
Statistics
Matches: 131, Mismatches: 4, Indels: 15
0.87 0.03 0.10
Matches are distributed among these distances:
19 4 0.03
20 16 0.12
21 46 0.35
22 62 0.47
23 3 0.02
ACGTcount: A:0.22, C:0.37, G:0.18, T:0.23
Consensus pattern (21 bp):
AGTGCATCCATGCATCCCTGC
Found at i:1087294 original size:8 final size:8
Alignment explanation
Indices: 1087254--1087380 Score: 52
Period size: 8 Copynumber: 17.5 Consensus size: 8
1087244 ACCCTTGCAG
1087254 TGCATCCA
1 TGCATCCA
*
1087262 TGCATCCC
1 TGCATCCA
1087270 TG---CCA
1 TGCATCCA
1087275 TGCATCCA
1 TGCATCCA
*
1087283 TGCATCCC
1 TGCATCCA
*
1087291 TGCA---G
1 TGCATCCA
*
1087296 TGCATTCA
1 TGCATCCA
1087304 TGCA-CC-
1 TGCATCCA
*
1087310 TGCA-CTA
1 TGCATCCA
1087317 GTGCATCCA
1 -TGCATCCA
1087326 TGCA-CC-
1 TGCATCCA
*
1087332 TGCA-CTA
1 TGCATCCA
1087339 GTGCATCCA
1 -TGCATCCA
1087348 TGCA-CC-
1 TGCATCCA
*
1087354 TGCA-CTA
1 TGCATCCA
1087361 GTGCATCCA
1 -TGCATCCA
1087370 TGCA-CCA
1 TGCATCCA
1087377 TGCA
1 TGCA
1087381 GTGCATCCAT
Statistics
Matches: 92, Mismatches: 12, Indels: 31
0.68 0.09 0.23
Matches are distributed among these distances:
5 8 0.09
6 15 0.16
7 12 0.13
8 51 0.55
9 6 0.07
ACGTcount: A:0.22, C:0.37, G:0.17, T:0.24
Consensus pattern (8 bp):
TGCATCCA
Found at i:1087297 original size:42 final size:42
Alignment explanation
Indices: 1087231--1087394 Score: 210
Period size: 42 Copynumber: 3.8 Consensus size: 42
1087221 AGGGGGTCAA
*
1087231 AGTGCACCCATGCACCCTTGCAGTGCATCCATGCATCCCTGC-C-
1 AGTGCATCCATGCACCC-TGCAGTGCATCCATGCA--CCTGCACT
*
1087274 A-TGCATCCATGCATCCCTGCAGTGCATTCATGCACCTGCACT
1 AGTGCATCCATGCA-CCCTGCAGTGCATCCATGCACCTGCACT
1087316 AGTGCATCCATGCA-CCTGCACTAGTGCATCCATGCACCTGCACT
1 AGTGCATCCATGCACCCTG--C-AGTGCATCCATGCACCTGCACT
*
1087360 AGTGCATCCATGCACCATGCAGTGCATCCATGCAC
1 AGTGCATCCATGCACCCTGCAGTGCATCCATGCAC
1087395 TCAAACACCG
Statistics
Matches: 109, Mismatches: 4, Indels: 17
0.84 0.03 0.13
Matches are distributed among these distances:
40 5 0.05
41 5 0.05
42 43 0.39
43 18 0.17
44 35 0.32
45 3 0.03
ACGTcount: A:0.22, C:0.37, G:0.18, T:0.23
Consensus pattern (42 bp):
AGTGCATCCATGCACCCTGCAGTGCATCCATGCACCTGCACT
Found at i:1087321 original size:22 final size:22
Alignment explanation
Indices: 1087252--1087394 Score: 169
Period size: 22 Copynumber: 6.7 Consensus size: 22
1087242 GCACCCTTGC
1087252 AGTGCATCCATGCATCCCTGC-C-
1 AGTGCATCCATGCA--CCTGCACT
1087274 A-TGCATCCATGCATCCCTG--C-
1 AGTGCATCCATGCA--CCTGCACT
*
1087294 AGTGCATTCATGCACCTGCACT
1 AGTGCATCCATGCACCTGCACT
1087316 AGTGCATCCATGCACCTGCACT
1 AGTGCATCCATGCACCTGCACT
1087338 AGTGCATCCATGCACCTGCACT
1 AGTGCATCCATGCACCTGCACT
1087360 AGTGCATCCATGCACCATG--C-
1 AGTGCATCCATGCACC-TGCACT
1087380 AGTGCATCCATGCAC
1 AGTGCATCCATGCAC
1087395 TCAAACACCG
Statistics
Matches: 114, Mismatches: 2, Indels: 12
0.89 0.02 0.09
Matches are distributed among these distances:
19 4 0.04
20 17 0.15
21 31 0.27
22 60 0.53
23 2 0.02
ACGTcount: A:0.22, C:0.36, G:0.18, T:0.23
Consensus pattern (22 bp):
AGTGCATCCATGCACCTGCACT
Found at i:1090728 original size:34 final size:30
Alignment explanation
Indices: 1090690--1090758 Score: 86
Period size: 30 Copynumber: 2.2 Consensus size: 30
1090680 TTGATATAAC
*
1090690 AATTTAAGGCAAAATGGTTTTTGGGCTTGAATTG
1 AATTTAA--CAAAAT-GTTTTTGGACTT-AATTG
1090724 AATTT-ACAAAATGTTTTTGGACTTAATTG
1 AATTTAACAAAATGTTTTTGGACTTAATTG
1090753 AATTTA
1 AATTTA
1090759 TTCAAAGTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
29 10 0.30
30 11 0.33
31 6 0.18
33 1 0.03
34 5 0.15
ACGTcount: A:0.33, C:0.06, G:0.19, T:0.42
Consensus pattern (30 bp):
AATTTAACAAAATGTTTTTGGACTTAATTG
Found at i:1090769 original size:29 final size:30
Alignment explanation
Indices: 1090699--1090758 Score: 95
Period size: 29 Copynumber: 2.0 Consensus size: 30
1090689 CAATTTAAGG
*
1090699 CAAAATGGTTTTTGGGCTTGAATTGAATTTA
1 CAAAAT-GTTTTTGGACTTGAATTGAATTTA
1090730 CAAAATGTTTTTGGACTT-AATTGAATTTA
1 CAAAATGTTTTTGGACTTGAATTGAATTTA
1090759 TTCAAAGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 11 0.39
31 6 0.21
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.43
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATTGAATTTA
Found at i:1090925 original size:22 final size:23
Alignment explanation
Indices: 1090888--1090930 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
1090878 GCATCCCTCC
1090888 AGTGCATCCATACACC-TGCATT
1 AGTGCATCCATACACCATGCATT
* *
1090910 AGTGCATCGATGCACCATGCA
1 AGTGCATCCATACACCATGCA
1090931 GTGCATCCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (23 bp):
AGTGCATCCATACACCATGCATT
Found at i:1091159 original size:20 final size:22
Alignment explanation
Indices: 1091121--1091160 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
1091111 TTTGAGTAGA
1091121 AAAATCATCCCCAAACGGCTCT
1 AAAATCATCCCCAAACGGCTCT
1091143 AAAA-CATCCCC-AACGGCT
1 AAAATCATCCCCAAACGGCT
1091161 ATATACAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (22 bp):
AAAATCATCCCCAAACGGCTCT
Found at i:1103517 original size:44 final size:44
Alignment explanation
Indices: 1103469--1103564 Score: 111
Period size: 44 Copynumber: 2.2 Consensus size: 44
1103459 ATAAGAATAA
** * * *
1103469 GATATAAGTTATGTGATATGATCTACGTGATTACACGAACATGT
1 GATATAAGCCATGTGACATGACCTACATGATTACACGAACATGT
** * *
1103513 GATATAAGCCATGTGACATGACCTACATGATTACTTGTATATGT
1 GATATAAGCCATGTGACATGACCTACATGATTACACGAACATGT
1103557 GATATAAG
1 GATATAAG
1103565 ATACAATAAA
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.33
Consensus pattern (44 bp):
GATATAAGCCATGTGACATGACCTACATGATTACACGAACATGT
Found at i:1104912 original size:194 final size:192
Alignment explanation
Indices: 1104679--1105135 Score: 481
Period size: 194 Copynumber: 2.4 Consensus size: 192
1104669 GAAAGAAAAA
* * * * * **
1104679 ATTGTCACATTGTTAGTGACATAGTAT-ATCTTCACCTAATAGTAGTATGAATGATGTTTATATA
1 ATTGTCACATTTTTAGCGACATAATATAATGTT-ACCTAATAATA-TATGAATGATGTTTATGCA
* * **
1104743 TAACGTCACTAT-CTGATTGATATTCGATGACAACT-AGTTACGTCACTAAATTATTTAAAATTT
64 TAACGTCACTATAC-AATTGATATTCGATGA-AACTAAGTTACGCCACTAAATTAAATAAAATTT
* * * * * *
1104806 TGTTATTGATAATTTATATTGTCACGAATAATACATTATAAT-AGACCTATGCATGACGAAAGAT
127 TGTTACTGATAATTTATATTGTCACAAATAATACATTAAAATCA-ACCTATACATGACAAAAGAG
1104870 AT
191 AT
* ** *
1104872 ATTGTTACATTTTTATTGACATAATATAAATGTTACCTAATAATATCATGAATGACGTTTATGCA
1 ATTGTCACATTTTTAGCGACATAATAT-AATGTTACCTAATAATAT-ATGAATGATGTTTATGCA
* * * * * * **
1104937 TAATGTCACTTTACAATTTATATTCTATGATAGTAAGTTACGCCACTAAATTAAATACGATTTTG
64 TAACGTCACTATACAATTGATATTCGATGAAACTAAGTTACGCCACTAAATTAAATAAAATTTTG
** * ** *
1105002 TTACTGATAATTTATATTGTCACAAATAATGTATTAAAATCAACTTATATGTGACAAAAGGGAT
129 TTACTGATAATTTATATTGTCACAAATAATACATTAAAATCAACCTATACATGACAAAAGAGAT
* *
1105066 ATTGTCACATTTTTAGCGACATAATATATTGTTACCTAATAATATTATGAATGATGATTATGCAT
1 ATTGTCACATTTTTAGCGACATAATATAATGTTACCTAATAATA-TATGAATGATGTTTATGCAT
1105131 AACGT
65 AACGT
1105136 TACCATATAT
Statistics
Matches: 217, Mismatches: 40, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
193 63 0.29
194 148 0.68
195 6 0.03
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (192 bp):
ATTGTCACATTTTTAGCGACATAATATAATGTTACCTAATAATATATGAATGATGTTTATGCATA
ACGTCACTATACAATTGATATTCGATGAAACTAAGTTACGCCACTAAATTAAATAAAATTTTGTT
ACTGATAATTTATATTGTCACAAATAATACATTAAAATCAACCTATACATGACAAAAGAGAT
Found at i:1113231 original size:94 final size:95
Alignment explanation
Indices: 1113062--1113242 Score: 276
Period size: 94 Copynumber: 1.9 Consensus size: 95
1113052 ATACCGAAGA
* *
1113062 GGTAGTATCGATACCATGGTAAGGGTATCGATACCAAGAATCATCGAATCTAAAATTGGTATCGA
1 GGTAGTATCGATACCATGGTAAGGGTATCGATACCAAGAATCATCGAACCTAAAATTGGCATCGA
* **
1113127 TATCGGAA-GGGGTATCGGTACTGTAGCAT
66 TACCAAAAGGGGGTATCGGTACTGTAGCAT
* *
1113156 GGTAGTATCGATACCATGGTAAGGGTATCGTTACCAGGTAA-CATCGAACCTAAAATTGGCATCG
1 GGTAGTATCGATACCATGGTAAGGGTATCGATACCAAG-AATCATCGAACCTAAAATTGGCATCG
1113220 ATACCAAAAGGGGGTATCGGTAC
65 ATACCAAAAGGGGGTATCGGTAC
1113243 CATAGCATAG
Statistics
Matches: 78, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
94 63 0.81
95 15 0.19
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.25
Consensus pattern (95 bp):
GGTAGTATCGATACCATGGTAAGGGTATCGATACCAAGAATCATCGAACCTAAAATTGGCATCGA
TACCAAAAGGGGGTATCGGTACTGTAGCAT
Found at i:1113988 original size:55 final size:55
Alignment explanation
Indices: 1113683--1113981 Score: 375
Period size: 55 Copynumber: 5.4 Consensus size: 55
1113673 GCATAATCAT
* *
1113683 GGAATTCATCATGAGTTGATGAATAGTCATATAGGCATTATGTGTGCAAAACCAC
1 GGAATTCATCATGAGTTGATGAATAGCCATACAGGCATTATGTGTGCAAAACCAC
* * * * *
1113738 AGAATTCATCATGAGTTGATAAATAGTCATATAGGTATTATGTGTGCAAAACCAC
1 GGAATTCATCATGAGTTGATGAATAGCCATACAGGCATTATGTGTGCAAAACCAC
* * * * *
1113793 AGAATTCATCATGAGTTGATAAATAGCAATACAGACACTT-TCTGTGCAAAACCAC
1 GGAATTCATCATGAGTTGATGAATAGCCATACAGGCA-TTATGTGTGCAAAACCAC
* * * * *
1113848 GTAATTCATCATTAGTTGATGAATAGCCATACATGAATTATGTGTGCAAAACCAT
1 GGAATTCATCATGAGTTGATGAATAGCCATACAGGCATTATGTGTGCAAAACCAC
* * * * * *
1113903 GAAATTCCTCATGAGTTGATGAATAGCCGTACATGCACTATGTGTGTAAAACCAC
1 GGAATTCATCATGAGTTGATGAATAGCCATACAGGCATTATGTGTGCAAAACCAC
1113958 GGAATTCATCATGAGTTGATGAAT
1 GGAATTCATCATGAGTTGATGAAT
1113982 TTCCGTATAG
Statistics
Matches: 213, Mismatches: 29, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
54 2 0.01
55 209 0.98
56 2 0.01
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (55 bp):
GGAATTCATCATGAGTTGATGAATAGCCATACAGGCATTATGTGTGCAAAACCAC
Found at i:1114454 original size:49 final size:49
Alignment explanation
Indices: 1114377--1114484 Score: 173
Period size: 49 Copynumber: 2.2 Consensus size: 49
1114367 AGGCCTAACT
1114377 GTGCATTTGACAGAAAAGTGTCAATTATGCCAGTTAGATGAAAGACTAA
1 GTGCATTTGACAGAAAAGTGTCAATTATGCCAGTTAGATGAAAGACTAA
* *
1114426 GTGCTTTTGACA-AAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAA
1 GTGCATTTGACAGAAAA-GTGTCAATTATGCCAGTTAGATGAAAGACTAA
*
1114475 GTGCCTTTGA
1 GTGCATTTGA
1114485 GGACTAATTG
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
48 4 0.07
49 51 0.93
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (49 bp):
GTGCATTTGACAGAAAAGTGTCAATTATGCCAGTTAGATGAAAGACTAA
Found at i:1114527 original size:68 final size:68
Alignment explanation
Indices: 1114426--1115286 Score: 1134
Period size: 68 Copynumber: 12.7 Consensus size: 68
1114416 GAAAGACTAA
* * * *
1114426 GTGCTTTTGACAAAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGACTA
1 GTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTA
*
1114491 ATT
66 ACT
* * * *
1114494 GTGCATTTGATAGAAAGCTATCAATTATGCCAGTTAGATGAAAGGCCAAGTGCCTTTGAGAG-CT
1 GTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAG-GCCT
*
1114558 AATT
65 AACT
*
1114562 GTGCATTTGA-ATGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTACCTTTGAGGCCT
1 GTGCATTTGACA-GAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCT
1114626 AACT
65 AACT
* * * * * *
1114630 GTGCAATTGAAATAAAGGTATCAATTATACCAGTTAGATGAAAGGCTAAGTGCCTTTGATGCCTA
1 GTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTA
*
1114695 ATT
66 ACT
* * * * * * * *
1114698 GTGCATTTGACATAAACGAGTCAATTATGTCAGTTAGATGAAAGGCTAAGTGTCTGTAAGGACTA
1 GTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTA
1114763 ACT
66 ACT
* *
1114766 GTGCATTTGATAGAAAGGTGTCAATTATGCAAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTA
1 GTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTA
*
1114831 ATT
66 ACT
* *
1114834 GTGCATTTGAGAGAAAGGTGTCAATTATG-CAGTTAGATGAAAGGCTAAGTGCCTTTCAGGCCTA
1 GTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTA
1114898 ACT
66 ACT
* * * *
1114901 TTGCATTTGACAGAAAGGTGTCAATTATGCTACTTAGATGAAAGGCTAAGTGCCTTTGATGCCTA
1 GTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTA
*
1114966 ACAC
66 AC-T
* * * **
1114970 GTGCATTTGATAGAAATGTGTTAATTATGATAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTA
1 GTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTA
1115035 ACT
66 ACT
* * *
1115038 GTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGACGAAGTGCCTTTGAGGCCTA
1 GTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTA
1115103 ACT
66 ACT
* * * *
1115106 GTGCATTTGACAGAAATGTGTTAATTATGCCAGTTAGATGAAAGGTTAAGTGCCTTTGAGGTCTA
1 GTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTA
1115171 ACT
66 ACT
* ** * * * * *
1115174 GTTCATTTGACATTAAGGTATTAATTATGCCAGTTAGATAAAATGCTAAGTGCCTTTAAGGCCTA
1 GTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTA
1115239 ACT
66 ACT
* * * *
1115242 GTGCATTTGACGGAAAGGTGACAATTATGCTAGATAGATGAAAGG
1 GTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
1115287 TTAAATTCCT
Statistics
Matches: 693, Mismatches: 94, Indels: 12
0.87 0.12 0.02
Matches are distributed among these distances:
67 64 0.09
68 567 0.82
69 62 0.09
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.31
Consensus pattern (68 bp):
GTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTA
ACT
Found at i:1115378 original size:45 final size:45
Alignment explanation
Indices: 1115317--1115430 Score: 156
Period size: 45 Copynumber: 2.5 Consensus size: 45
1115307 ACTATGTGTA
*
1115317 TAACAGTGTATAAAAGGCATGAAAGGATGCCATAAATGAAATGTG
1 TAACAGTGTATAAAAGGCATGAAAGGATGCCATAAATAAAATGTG
* * *
1115362 TAACGGTGTATAAAAGGCATGAAATGATGCCATAAATAAAATGTA
1 TAACAGTGTATAAAAGGCATGAAAGGATGCCATAAATAAAATGTG
* * *
1115407 TAATAATATATAAAAAGGCATGAA
1 TAACAGTGTAT-AAAAGGCATGAA
1115431 CGGTTTCCAA
Statistics
Matches: 60, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
45 48 0.80
46 12 0.20
ACGTcount: A:0.48, C:0.08, G:0.20, T:0.24
Consensus pattern (45 bp):
TAACAGTGTATAAAAGGCATGAAAGGATGCCATAAATAAAATGTG
Found at i:1119076 original size:94 final size:95
Alignment explanation
Indices: 1118954--1119128 Score: 250
Period size: 94 Copynumber: 1.9 Consensus size: 95
1118944 CCGAAGAGGC
* *
1118954 AGTATCGATATCATGGTAAGGGTATCGATACC-AGGAATCATCGAATCTAAAATTGGTATCGATA
1 AGTATCGATATCATGGTAAGGGTATCGATACCAAGGAA-CATCAAACCTAAAATTGGTATCGATA
**
1119018 CCGGAA-GGGGTATCGGTATCATAGCATGCT
65 CCAAAAGGGGGTATCGGTATCATAGCATGCT
*
1119048 AGTATCGAT-TCCATGG-ATAGGGTATCGATACCAAGTAACATCAAACCTAAAATTGGTATCGAT
1 AGTATCGATAT-CATGGTA-AGGGTATCGATACCAAGGAACATCAAACCTAAAATTGGTATCGAT
1119111 ACCAAAAGGGGGTATCGG
64 ACCAAAAGGGGGTATCGG
1119129 CACCATAGAA
Statistics
Matches: 72, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
93 2 0.03
94 56 0.78
95 14 0.19
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.25
Consensus pattern (95 bp):
AGTATCGATATCATGGTAAGGGTATCGATACCAAGGAACATCAAACCTAAAATTGGTATCGATAC
CAAAAGGGGGTATCGGTATCATAGCATGCT
Found at i:1119620 original size:55 final size:55
Alignment explanation
Indices: 1119552--1119869 Score: 424
Period size: 55 Copynumber: 5.8 Consensus size: 55
1119542 CACGTACTGG
* * *
1119552 GCACTATGTGTGCATAATCACGGAATTCATCATGAGTTGATGAACAGCCGTACAT
1 GCACTATGTGTGCAAAACCACGGAATTCATCATGAGTTGATGAATAGCCGTACAT
* * * *
1119607 GCACTATGTGTGCAAAACCACGGAATTCATCATGATTTGATGAATAGTCGTATAA
1 GCACTATGTGTGCAAAACCACGGAATTCATCATGAGTTGATGAATAGCCGTACAT
** *
1119662 GCACTATGTGTGCAAAACCATAGAATTCATCATGAGTTGATGGATAGCCGTACAT
1 GCACTATGTGTGCAAAACCACGGAATTCATCATGAGTTGATGAATAGCCGTACAT
** *
1119717 GCACTATGTGTGCAAAACCAATGAATTCATCATGAGTTGATGAATAGCCGTACAG
1 GCACTATGTGTGCAAAACCACGGAATTCATCATGAGTTGATGAATAGCCGTACAT
* * * * * **
1119772 GCACTATGTGTGCAAATCCATGAAATTCATCATGAGTTGTTAAATAGTTGTACAT
1 GCACTATGTGTGCAAAACCACGGAATTCATCATGAGTTGATGAATAGCCGTACAT
* *
1119827 GCAC--TGTGTGCAAAACCACAGATTTCATCATGAGTTGATGAAT
1 GCACTATGTGTGCAAAACCACGGAATTCATCATGAGTTGATGAAT
1119870 TACTGTATAG
Statistics
Matches: 229, Mismatches: 34, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
53 32 0.14
55 197 0.86
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.29
Consensus pattern (55 bp):
GCACTATGTGTGCAAAACCACGGAATTCATCATGAGTTGATGAATAGCCGTACAT
Found at i:1120856 original size:68 final size:68
Alignment explanation
Indices: 1120252--1120843 Score: 875
Period size: 68 Copynumber: 8.7 Consensus size: 68
1120242 GATTAAAGGT
*
1120252 CTAATTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
1 CTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
*
1120317 GAC
66 GGC
* * * * * *
1120320 CCAACTGTGCATTTGACATAAATGTGTCAATTATACAAGTTAGATGAAAGGCTAAGTTCCTTTGA
1 CTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
1120385 GGC
66 GGC
* *
1120388 CTAACTGTGCATTTGACAGAAAGGTGTCCATTATG-CAGTTAGATGAAAAGCTAAGTGCCTTTGA
1 CTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
1120452 GGC
66 GGC
* * *
1120455 CTAATTGTGCATTTGACAGAAAGGTGTCAATTATTCCAGTTAGATGAAAGGCTATGTGCCTTTGA
1 CTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
*
1120520 TGC
66 GGC
* * *
1120523 CTAATTGTGCATTTGACAAAAAGGTGTCAATTATACCAGTTAGATGAAAGGCTAAGTGCCTTTGA
1 CTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
*
1120588 GGT
66 GGC
* * *
1120591 CTAACTATGCATTTGATAGAAAGGTGTCAATTATGCCAATTAGATGAAAGG-TGAAGTGCCTTTG
1 CTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCT-AAGTGCCTTTG
1120655 AGGC
65 AGGC
* * *
1120659 CTAACTGTGCATTTGACAGAAAGGTGCCAATTATGCCAGTTAGATAAAAGGCTAAGTGCCTGAT-
1 CTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT-TTG
1120723 AGGC
65 AGGC
* * * * *
1120727 CTAACTGTACATTTGACAGAAAGGTGTTAATTATTCCAGTTAGATAAAAGGCTAAGTGCCTTTAA
1 CTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
1120792 GGC
66 GGC
*
1120795 CTAACTGTGCATTTGACAAAAAGGTGTCAATTATGCCAGTTAGATGAAA
1 CTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAA
1120844 AGTTAAATGC
Statistics
Matches: 469, Mismatches: 50, Indels: 10
0.89 0.09 0.02
Matches are distributed among these distances:
67 63 0.13
68 404 0.86
69 2 0.00
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (68 bp):
CTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
GGC
Found at i:1121011 original size:46 final size:45
Alignment explanation
Indices: 1120875--1121026 Score: 178
Period size: 45 Copynumber: 3.3 Consensus size: 45
1120865 GACTAGATGT
1120875 ATAACAATGTATAACGGTGTATAAAAGGCATGAAAGGATGCCATAA
1 ATAA-AATGTATAACGGTGTATAAAAGGCATGAAAGGATGCCATAA
* * * *
1120921 ATGAAATGTATAACGGTGTATGAAAGGCATGAAATGATGTCATAA
1 ATAAAATGTATAACGGTGTATAAAAGGCATGAAAGGATGCCATAA
** * * * *
1120966 ATAAAATGTATAATAGTATATAAAAAGGCATGTACGGTTGCCATAA
1 ATAAAATGTATAACGGTGTAT-AAAAGGCATGAAAGGATGCCATAA
*
1121012 ATGAAAATGCATAAC
1 AT-AAAATGTATAAC
1121027 AATGCATTAT
Statistics
Matches: 88, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
45 55 0.62
46 23 0.26
47 10 0.11
ACGTcount: A:0.45, C:0.09, G:0.20, T:0.25
Consensus pattern (45 bp):
ATAAAATGTATAACGGTGTATAAAAGGCATGAAAGGATGCCATAA
Found at i:1122190 original size:14 final size:14
Alignment explanation
Indices: 1122171--1122207 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
1122161 GTTGTTAATT
1122171 TGAGTAAGAGGAAA
1 TGAGTAAGAGGAAA
1122185 TGAGTAAGAGGAAA
1 TGAGTAAGAGGAAA
*
1122199 GGAGTAAGA
1 TGAGTAAGA
1122208 TGTAAATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.49, C:0.00, G:0.38, T:0.14
Consensus pattern (14 bp):
TGAGTAAGAGGAAA
Found at i:1122693 original size:2 final size:2
Alignment explanation
Indices: 1122688--1122722 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1122678 GGATTCGGTC
1122688 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1122723 GCTTTTCTAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1122988 original size:2 final size:2
Alignment explanation
Indices: 1122981--1123056 Score: 152
Period size: 2 Copynumber: 38.0 Consensus size: 2
1122971 ATTTGAAAAG
1122981 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1123023 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1123057 TATGCCTAGA
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 74 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1124693 original size:94 final size:94
Alignment explanation
Indices: 1124528--1124699 Score: 274
Period size: 94 Copynumber: 1.8 Consensus size: 94
1124518 CGAAGAGGTG
* * *
1124528 GTATCGATACCATGGTAAGGGTATCGATACCAGGAATCATCGAATCTAAAATTGGTATCGATACT
1 GTATCGATACCATGGTAAGGGTATCGATACCAGAAAACATCGAATCTAAAATTGGTATCGATACC
**
1124593 GGAAGGGGTATCGGTACCATAGCATGGTA
66 AAAAGGGGTATCGGTACCATAGCATGGTA
*
1124622 GTATCGATACCATGGTAAGGGTATCGATACCAGAAAACATTGAA-CTTAAAATTGGTATCGATAC
1 GTATCGATACCATGGTAAGGGTATCGATACCAGAAAACATCGAATC-TAAAATTGGTATCGATAC
1124686 CAAAAGGGGTATCG
65 CAAAAGGGGTATCG
1124700 ATACAATAAC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
93 1 0.01
94 70 0.99
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (94 bp):
GTATCGATACCATGGTAAGGGTATCGATACCAGAAAACATCGAATCTAAAATTGGTATCGATACC
AAAAGGGGTATCGGTACCATAGCATGGTA
Found at i:1124740 original size:94 final size:94
Alignment explanation
Indices: 1124528--1124745 Score: 244
Period size: 94 Copynumber: 2.3 Consensus size: 94
1124518 CGAAGAGGTG
* * * * *
1124528 GTATCGATACCATGGTAAGGGTATCGATACCAGGAATCATCGAATCTAAAATTGGTATCGATACT
1 GTATCGATACCAGGGTAAGAGTATCGATACCAGAAAACATCGAATCTAAAATTGGTATCGATACC
** * * * * *
1124593 GGAAGGGGTATCGGTACCATAGCATGGTA
66 AAAAGGGGTATCGATACAATAACATAGAA
* * *
1124622 GTATCGATACCATGGTAAGGGTATCGATACCAGAAAACATTGAA-CTTAAAATTGGTATCGATAC
1 GTATCGATACCAGGGTAAGAGTATCGATACCAGAAAACATCGAATC-TAAAATTGGTATCGATAC
1124686 CAAAAGGGGTATCGATACAATAACATAGAA
65 CAAAAGGGGTATCGATACAATAACATAGAA
*
1124716 GTA-CAGGTACCAGGGT-AGTAGTATCGATAC
1 GTATC-GATACCAGGGTAAG-AGTATCGATAC
1124746 TATGGAGGCA
Statistics
Matches: 107, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
93 4 0.04
94 103 0.96
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (94 bp):
GTATCGATACCAGGGTAAGAGTATCGATACCAGAAAACATCGAATCTAAAATTGGTATCGATACC
AAAAGGGGTATCGATACAATAACATAGAA
Found at i:1125407 original size:55 final size:55
Alignment explanation
Indices: 1125118--1125383 Score: 424
Period size: 55 Copynumber: 4.8 Consensus size: 55
1125108 TTTTGTACTG
* * * *
1125118 GGCACTATGTGTGCATAATCACGTAATTCATCATGAGTTGATGAATAGCCGTACA
1 GGCACTATGTGTGCAAAACCACGGAATTCATCATGAGTTGATGAATAGTCGTACA
*
1125173 GGCACTATGTGTGCAAAACCACGGAATTCATCATGAGTTGATGAAAAGTCGTACA
1 GGCACTATGTGTGCAAAACCACGGAATTCATCATGAGTTGATGAATAGTCGTACA
* * *
1125228 TGCACTTTGTGTGCAAAACCAAGGAATTCATCATGAGTTGATGAATAGTCGTACA
1 GGCACTATGTGTGCAAAACCACGGAATTCATCATGAGTTGATGAATAGTCGTACA
* * * *
1125283 GGCACTATATGTGCAAAACCATGAAATTCATCATGAGTTGTTGAATAGTCGTACA
1 GGCACTATGTGTGCAAAACCACGGAATTCATCATGAGTTGATGAATAGTCGTACA
1125338 GGCACTATGTGTGCAAAACCACGGAATTCATCATGAGTTGATGAAT
1 GGCACTATGTGTGCAAAACCACGGAATTCATCATGAGTTGATGAAT
1125384 TACTGTATAG
Statistics
Matches: 192, Mismatches: 19, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 192 1.00
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.27
Consensus pattern (55 bp):
GGCACTATGTGTGCAAAACCACGGAATTCATCATGAGTTGATGAATAGTCGTACA
Found at i:1125859 original size:68 final size:68
Alignment explanation
Indices: 1125754--1126286 Score: 784
Period size: 68 Copynumber: 7.9 Consensus size: 68
1125744 GGTATGACTA
*
1125754 TGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGACCTAA
1 TGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAA
*
1125819 CTA
66 CTG
* * *
1125822 TGTATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAATGCTAAGTGCCTTTAAGGCCTAA
1 TGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAA
1125887 CTG
66 CTG
* * * * *
1125890 TGCATTTGACATAAAGATATCAATTATACCAGTTAGATGAAAGGCTAAGTGCCTTTGATGCC-AA
1 TGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAA
1125954 CTG
66 CTG
** *
1125957 TGCATTTGACAGAAAGGTGTCAATTATGATAGTTAGATGAAAGGCTAAGTACCTTTGAGGCCTAA
1 TGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAA
1126022 CTG
66 CTG
** * *
1126025 TGCATTTGACAGAAATATGTCAATTATGTCAGTT-GTATGAAAGGCGAAGTGCCTTTGAGGCCTA
1 TGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAG-ATGAAAGGCTAAGTGCCTTTGAGGCCTA
1126089 ACTG
65 ACTG
*
1126093 TGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAA
1 TGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAA
1126158 CTG
66 CTG
* * * * *
1126161 TGCATTTGACATAAAGGTGTCAATTATGTCAGTTAGATAAAAGGCTAAGTGCCATTAAGGCCTAA
1 TGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAA
1126226 CTG
66 CTG
* * * * *
1126229 TGCATTTGATAGAAAGGTGTCAATTATGCCAATTAGATTAAAGGTTAAATG-CTTTGAG
1 TGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAG
1126287 TAAAAGACTA
Statistics
Matches: 417, Mismatches: 45, Indels: 7
0.89 0.10 0.01
Matches are distributed among these distances:
67 65 0.16
68 351 0.84
69 1 0.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.30
Consensus pattern (68 bp):
TGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAA
CTG
Found at i:1126286 original size:203 final size:203
Alignment explanation
Indices: 1125754--1126286 Score: 786
Period size: 203 Copynumber: 2.6 Consensus size: 203
1125744 GGTATGACTA
* *
1125754 TGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGACCTAA
1 TGCATTTGACAGAAAGGTGTCAATTATGTCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAA
* * * *
1125819 CTATGTATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAATGCTAAGTGCCTTTAAGGCC
66 CTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCC
* *
1125884 TAACTGTGCATTTGACATAAAGATATCAATTATACCAGTTAGATGAAAGGCTAAGTGCCTTTGAT
131 TAACTGTGCATTTGACAGAAAGATATCAATTATACCAGTTAGATGAAAGGCTAAGTGCCTTTGAG
1125949 GCCAACTG
196 GCCAACTG
*
1125957 TGCATTTGACAGAAAGGTGTCAATTATGAT-AGTTAGATGAAAGGCTAAGTACCTTTGAGGCCTA
1 TGCATTTGACAGAAAGGTGTCAATTATG-TCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTA
** * *
1126021 ACTGTGCATTTGACAGAAATATGTCAATTATGTCAGTT-GTATGAAAGGCGAAGTGCCTTTGAGG
65 ACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAG-ATGAAAGGCTAAGTGCCTTTGAGG
* *
1126085 CCTAACTGTGCATTTGACAGAAATG-TGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
129 CCTAACTGTGCATTTGACAGAAA-GATATCAATTATACCAGTTAGATGAAAGGCTAAGTGCCTTT
1126149 GAGGCCTAACTG
193 GAGGCC-AACTG
* * * *
1126161 TGCATTTGACATAAAGGTGTCAATTATGTCAGTTAGATAAAAGGCTAAGTGCCATTAAGGCCTAA
1 TGCATTTGACAGAAAGGTGTCAATTATGTCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAA
* * * * *
1126226 CTGTGCATTTGATAGAAAGGTGTCAATTATGCCAATTAGATTAAAGGTTAAATG-CTTTGAG
66 CTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAG
1126287 TAAAAGACTA
Statistics
Matches: 295, Mismatches: 29, Indels: 12
0.88 0.09 0.04
Matches are distributed among these distances:
202 1 0.00
203 186 0.63
204 107 0.36
205 1 0.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.30
Consensus pattern (203 bp):
TGCATTTGACAGAAAGGTGTCAATTATGTCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAA
CTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCC
TAACTGTGCATTTGACAGAAAGATATCAATTATACCAGTTAGATGAAAGGCTAAGTGCCTTTGAG
GCCAACTG
Found at i:1126393 original size:22 final size:22
Alignment explanation
Indices: 1126322--1126393 Score: 65
Period size: 22 Copynumber: 3.2 Consensus size: 22
1126312 ATAACGGTGT
*
1126322 ATAAAAGGCATGAAAGGATGCC
1 ATAAAAGGCATGAAATGATGCC
* ** * *
1126344 ATAAATGTAATGTATAATGGTG-T
1 ATAAAAGGCATG-A-AATGATGCC
1126367 ATAAAAGGCATGAAATGATGCC
1 ATAAAAGGCATGAAATGATGCC
1126389 ATAAA
1 ATAAA
1126394 TAAAATGTAT
Statistics
Matches: 36, Mismatches: 11, Indels: 6
0.68 0.21 0.11
Matches are distributed among these distances:
21 6 0.17
22 15 0.42
23 10 0.28
24 5 0.14
ACGTcount: A:0.46, C:0.08, G:0.22, T:0.24
Consensus pattern (22 bp):
ATAAAAGGCATGAAATGATGCC
Found at i:1126445 original size:46 final size:46
Alignment explanation
Indices: 1126307--1126477 Score: 195
Period size: 45 Copynumber: 3.8 Consensus size: 46
1126297 GATGTATAAC
* *
1126307 AATGTATAACGGTGTATAAAAGGCATGAAAGGATGCCATAAATG-T
1 AATGTATAATGGTGTATAAAAGGCATGAAAGGATGCCATAAATGAA
*
1126352 AATGTATAATGGTGTATAAAAGGCATGAAATGATGCCATAAAT-AA
1 AATGTATAATGGTGTATAAAAGGCATGAAAGGATGCCATAAATGAA
* * * * *
1126397 AATGTATAATAGTATATAAAAAGGCATG-ACGGTTACCATAAATGAA
1 AATGTATAATGGTGTAT-AAAAGGCATGAAAGGATGCCATAAATGAA
* * * * *
1126443 AATGTATAATGATGCATTATAGGCATGAATGGATG
1 AATGTATAATGGTGTATAAAAGGCATGAAAGGATG
1126478 TTTTCAATCA
Statistics
Matches: 104, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
45 75 0.72
46 29 0.28
ACGTcount: A:0.44, C:0.08, G:0.22, T:0.27
Consensus pattern (46 bp):
AATGTATAATGGTGTATAAAAGGCATGAAAGGATGCCATAAATGAA
Found at i:1126467 original size:91 final size:91
Alignment explanation
Indices: 1126302--1126471 Score: 209
Period size: 91 Copynumber: 1.9 Consensus size: 91
1126292 GACTAGATGT
* * * * * *
1126302 ATAACAATGTATAACGGTGTATAAAAGGCATGAAAGGATGCCATAAATGTAATGTATAATGGTGT
1 ATAACAATGTATAACAGTATATAAAAGGCATGAAAGGATACCATAAATGAAATGTATAATGATGC
1126367 ATAAAAGGCATGAAATGATGCCATAA
66 ATAAAAGGCATGAAATGATGCCATAA
* * *
1126393 ATAA-AATGTATAATAGTATATAAAAAGGCATG-ACGGTTACCATAAATGAAAATGTATAATGAT
1 ATAACAATGTATAACAGTATAT-AAAAGGCATGAAAGGATACCATAAATG-AAATGTATAATGAT
* *
1126456 GCATTATAGGCATGAA
64 GCATAAAAGGCATGAA
1126472 TGGATGTTTT
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
90 27 0.41
91 39 0.59
ACGTcount: A:0.45, C:0.08, G:0.20, T:0.26
Consensus pattern (91 bp):
ATAACAATGTATAACAGTATATAAAAGGCATGAAAGGATACCATAAATGAAATGTATAATGATGC
ATAAAAGGCATGAAATGATGCCATAA
Found at i:1130201 original size:22 final size:23
Alignment explanation
Indices: 1130154--1130211 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 23
1130144 CCCTAAATGA
1130154 GGGAATCGATTCCAATTCAAAGG
1 GGGAATCGATTCCAATTCAAAGG
* **
1130177 GGGAATCGGTTCCCCTTC-AAGG
1 GGGAATCGATTCCAATTCAAAGG
* *
1130199 GGGTACCGATTCC
1 GGGAATCGATTCC
1130212 TCCTGCACTA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
22 14 0.48
23 15 0.52
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.22
Consensus pattern (23 bp):
GGGAATCGATTCCAATTCAAAGG
Found at i:1137398 original size:21 final size:21
Alignment explanation
Indices: 1137372--1137453 Score: 85
Period size: 21 Copynumber: 3.8 Consensus size: 21
1137362 AGGGTGTCAA
* *
1137372 AGTGTATCCATGTACTCCTGC
1 AGTGTATCCATGCACTCCTAC
*
1137393 AGTGTATCCATGCATTCCTAC
1 AGTGTATCCATGCACTCCTAC
*
1137414 AGTGCATCCATGCACCTGCC-AC
1 AGTGTATCCATGCA-CT-CCTAC
*
1137436 TAGTGCATCCATGCACTC
1 -AGTGTATCCATGCACTC
1137454 TATTTCGAAT
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
21 32 0.60
22 5 0.09
23 16 0.30
ACGTcount: A:0.22, C:0.33, G:0.17, T:0.28
Consensus pattern (21 bp):
AGTGTATCCATGCACTCCTAC
Found at i:1137654 original size:20 final size:22
Alignment explanation
Indices: 1137616--1137655 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
1137606 TTTGAGTAGA
1137616 AAAATCATCCCCAAATGGCTCC
1 AAAATCATCCCCAAATGGCTCC
1137638 AAAA-CATCCCC-AATGGCT
1 AAAATCATCCCCAAATGGCT
1137656 ATATACAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.38, C:0.35, G:0.10, T:0.17
Consensus pattern (22 bp):
AAAATCATCCCCAAATGGCTCC
Found at i:1138827 original size:19 final size:19
Alignment explanation
Indices: 1138791--1138827 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1138781 TAAAAATTAT
*
1138791 TTGATTTTGAAAGCCAAAG
1 TTGATTTTGAAAACCAAAG
*
1138810 TTGATTTTGAAAATCAAA
1 TTGATTTTGAAAACCAAA
1138828 ATGAAATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.08, G:0.16, T:0.35
Consensus pattern (19 bp):
TTGATTTTGAAAACCAAAG
Found at i:1139989 original size:21 final size:21
Alignment explanation
Indices: 1139963--1140002 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1139953 AAACAACTGG
1139963 TAACAATTGATATCATTTTGT
1 TAACAATTGATATCATTTTGT
* *
1139984 TAACAATTGGTATCTTTTT
1 TAACAATTGATATCATTTT
1140003 CATTAAACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (21 bp):
TAACAATTGATATCATTTTGT
Found at i:1140251 original size:21 final size:21
Alignment explanation
Indices: 1140225--1140287 Score: 72
Period size: 23 Copynumber: 2.9 Consensus size: 21
1140215 AGGGTGTCAA
* **
1140225 AGTGCATACATGCACTCCTGT
1 AGTGCATCCATGCACTCCACT
*
1140246 AGTGCATCCATTCACCTGCCACT
1 AGTGCATCCATGCA-CT-CCACT
1140269 AGTGCATCCATGCACTCCA
1 AGTGCATCCATGCACTCCA
1140288 TTTCGAATGC
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 15 0.43
22 4 0.11
23 16 0.46
ACGTcount: A:0.24, C:0.35, G:0.16, T:0.25
Consensus pattern (21 bp):
AGTGCATCCATGCACTCCACT
Found at i:1140486 original size:20 final size:22
Alignment explanation
Indices: 1140448--1140487 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
1140438 TTTGAGTAGA
1140448 AAAATCATCCCCAAACGGCTCC
1 AAAATCATCCCCAAACGGCTCC
1140470 AAAA-CATCCCC-AACGGCT
1 AAAATCATCCCCAAACGGCT
1140488 ATATACAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.38, C:0.40, G:0.10, T:0.12
Consensus pattern (22 bp):
AAAATCATCCCCAAACGGCTCC
Found at i:1140771 original size:32 final size:34
Alignment explanation
Indices: 1140700--1140771 Score: 85
Period size: 34 Copynumber: 2.1 Consensus size: 34
1140690 CCTTTTGTAA
* * *
1140700 AGGGTAAATGTTCTAGCTTATCCCGTGTAAAATCT
1 AGGG-AAAGGTTCTAGCTTAGCCCGTGTAAAAACT
*
1140735 AGGGAAAGGTTCTAGTTTAGCCCG-G-AAAAACT
1 AGGGAAAGGTTCTAGCTTAGCCCGTGTAAAAACT
1140767 AGGGA
1 AGGGA
1140772 GTTGTAAGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
32 11 0.33
33 1 0.03
34 17 0.52
35 4 0.12
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.26
Consensus pattern (34 bp):
AGGGAAAGGTTCTAGCTTAGCCCGTGTAAAAACT
Found at i:1149403 original size:36 final size:36
Alignment explanation
Indices: 1149356--1149425 Score: 113
Period size: 36 Copynumber: 1.9 Consensus size: 36
1149346 TACTGGTTCT
*
1149356 GTTGATGTTGCAAATGTGATTGTTGCGGCTGTTGCC
1 GTTGATGTTGCAAATGTGACTGTTGCGGCTGTTGCC
**
1149392 GTTGATGTTGCAAATGTGACTGTTGTTGCTGTTG
1 GTTGATGTTGCAAATGTGACTGTTGCGGCTGTTG
1149426 TTGGTGGTGG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.14, C:0.11, G:0.33, T:0.41
Consensus pattern (36 bp):
GTTGATGTTGCAAATGTGACTGTTGCGGCTGTTGCC
Found at i:1150619 original size:2 final size:2
Alignment explanation
Indices: 1150612--1150638 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1150602 ATTTATATTC
1150612 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
1150639 AATACTTGTA
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:1150809 original size:3 final size:3
Alignment explanation
Indices: 1150801--1150826 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1150791 TCCTTTTTCT
1150801 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
1150827 ATCTTATCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:1152032 original size:2 final size:2
Alignment explanation
Indices: 1152025--1152049 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1152015 TTAAATTATC
1152025 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
1152050 GATCTCGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:1152534 original size:17 final size:17
Alignment explanation
Indices: 1152512--1152551 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
1152502 AATTTGATAT
*
1152512 ACTCGACTTAAGTTTGA
1 ACTCGACTTAAGTTCGA
1152529 ACTCGACTTAAGTTCGA
1 ACTCGACTTAAGTTCGA
1152546 ACTCGA
1 ACTCGA
1152552 ACTTGACTCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (17 bp):
ACTCGACTTAAGTTCGA
Found at i:1153925 original size:17 final size:16
Alignment explanation
Indices: 1153869--1153925 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 16
1153859 AATTTAAAAC
*
1153869 AAAAATATATTATAAATA
1 AAAAATATA-TA-AAATT
*
1153887 AAAAATATAAAAATATT
1 AAAAATATATAAA-ATT
*
1153904 TAAAATATATAAGAATT
1 AAAAATATATAA-AATT
1153921 AAAAA
1 AAAAA
1153926 ATAAATCTTC
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
16 2 0.06
17 20 0.62
18 10 0.31
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (16 bp):
AAAAATATATAAAATT
Found at i:1154316 original size:22 final size:20
Alignment explanation
Indices: 1154276--1154326 Score: 52
Period size: 22 Copynumber: 2.5 Consensus size: 20
1154266 AGAGGTAAAC
1154276 TATTATTA-TCCATATTTAA
1 TATTATTATTCCATATTTAA
*
1154295 TATTATTATTTCATTATGTTAA
1 TATTATTATTCCA-TAT-TTAA
1154317 T-TATATTATT
1 TAT-TATTATT
1154327 AGATTCTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 8 0.30
20 3 0.11
21 4 0.15
22 12 0.44
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (20 bp):
TATTATTATTCCATATTTAA
Found at i:1155327 original size:20 final size:20
Alignment explanation
Indices: 1155302--1155359 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
1155292 TTCACAATGG
*
1155302 GAATATGGAAATCGCAACGC
1 GAATATGTAAATCGCAACGC
1155322 GAATATGTAAATCGCAACGC
1 GAATATGTAAATCGCAACGC
* *
1155342 GAATTTGTAAATTGCAAC
1 GAATATGTAAATCGCAAC
1155360 ATAGAAGTCA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.22
Consensus pattern (20 bp):
GAATATGTAAATCGCAACGC
Found at i:1155378 original size:20 final size:20
Alignment explanation
Indices: 1155350--1155394 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
1155340 GCGAATTTGT
*
1155350 AAATT-GCAACATAGAAGTC
1 AAATTCGCAACACAGAAGTC
1155369 AAATTCGCAACACAGAAGTC
1 AAATTCGCAACACAGAAGTC
1155389 AAATTC
1 AAATTC
1155395 ACAAAGCGCG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 5 0.21
20 19 0.79
ACGTcount: A:0.47, C:0.20, G:0.13, T:0.20
Consensus pattern (20 bp):
AAATTCGCAACACAGAAGTC
Found at i:1155948 original size:20 final size:20
Alignment explanation
Indices: 1155925--1155963 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1155915 TATGAAACTT
*
1155925 AAATTCGCAACAAGAAAATG
1 AAATCCGCAACAAGAAAATG
*
1155945 AAATCCGCAACACGAAAAT
1 AAATCCGCAACAAGAAAAT
1155964 TGCAACGCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.54, C:0.21, G:0.13, T:0.13
Consensus pattern (20 bp):
AAATCCGCAACAAGAAAATG
Found at i:1155969 original size:34 final size:35
Alignment explanation
Indices: 1155925--1155993 Score: 90
Period size: 34 Copynumber: 2.0 Consensus size: 35
1155915 TATGAAACTT
1155925 AAATTCGCAAC-AAGAAAATG-AAATCCGCAACACGA
1 AAATTCGCAACGAA-AAAATGAAAAT-CGCAACACGA
*
1155960 AAATT-GCAACGCAAAAATGAAAATCGCAACACGA
1 AAATTCGCAACGAAAAAATGAAAATCGCAACACGA
1155994 TTTTAGTTTC
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
34 21 0.68
35 10 0.32
ACGTcount: A:0.52, C:0.22, G:0.14, T:0.12
Consensus pattern (35 bp):
AAATTCGCAACGAAAAAATGAAAATCGCAACACGA
Found at i:1156028 original size:20 final size:20
Alignment explanation
Indices: 1155991--1156052 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
1155981 AATCGCAACA
* *
1155991 CGATTTT-AGTTTCACGTTG
1 CGATTTTCATTTTCTCGTTG
1156010 CGATTTTCATTTTCTCGTTG
1 CGATTTTCATTTTCTCGTTG
*
1156030 CAATTTTCATTTT-TGCGTTG
1 CGATTTTCATTTTCT-CGTTG
1156050 CGA
1 CGA
1156053 ATTTAAGTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
19 8 0.22
20 29 0.78
ACGTcount: A:0.15, C:0.18, G:0.18, T:0.50
Consensus pattern (20 bp):
CGATTTTCATTTTCTCGTTG
Found at i:1157894 original size:21 final size:21
Alignment explanation
Indices: 1157849--1157897 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
1157839 AATGGTGCTT
* * * *
1157849 TACGTGGTGAGGTATCTACTT
1 TACGTGATGAGGTAGCCACTC
1157870 TACGTGATGAGGTAGCCACTC
1 TACGTGATGAGGTAGCCACTC
1157891 TACGTGA
1 TACGTGA
1157898 GATTGTTTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (21 bp):
TACGTGATGAGGTAGCCACTC
Found at i:1158249 original size:21 final size:21
Alignment explanation
Indices: 1158180--1158255 Score: 107
Period size: 21 Copynumber: 3.6 Consensus size: 21
1158170 ATTCACCTGT
*
1158180 CATCGTTCAAGAAGCCCCTCA
1 CATCGTTCAAGAGGCCCCTCA
* *
1158201 TATCGTTCAAGAGGCCCCTCT
1 CATCGTTCAAGAGGCCCCTCA
*
1158222 CATCGTTCAAGAGGCCCCTCC
1 CATCGTTCAAGAGGCCCCTCA
*
1158243 CACCGTTCAAGAG
1 CATCGTTCAAGAG
1158256 CCCGATTCAC
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 49 1.00
ACGTcount: A:0.24, C:0.37, G:0.18, T:0.21
Consensus pattern (21 bp):
CATCGTTCAAGAGGCCCCTCA
Found at i:1159923 original size:18 final size:18
Alignment explanation
Indices: 1159900--1159935 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
1159890 AAGCTGGTTG
1159900 TGATTGAGATTTTGATTT
1 TGATTGAGATTTTGATTT
*
1159918 TGATTGCGATTTTGATTT
1 TGATTGAGATTTTGATTT
1159936 CCTTTTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.03, G:0.22, T:0.56
Consensus pattern (18 bp):
TGATTGAGATTTTGATTT
Found at i:1162003 original size:3 final size:3
Alignment explanation
Indices: 1161995--1162019 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1161985 TCTTCGGGGA
1161995 CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT C
1162020 AGGGTTATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:1163010 original size:16 final size:15
Alignment explanation
Indices: 1162988--1163026 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
1162978 TAAATCATTG
1162988 AAAAATTATATAGAAA
1 AAAAATTATATA-AAA
* *
1163004 TAAAATTATGTAAAA
1 AAAAATTATATAAAA
1163019 AAAAATTA
1 AAAAATTA
1163027 GAGATGGGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (15 bp):
AAAAATTATATAAAA
Found at i:1163242 original size:20 final size:20
Alignment explanation
Indices: 1163219--1163295 Score: 61
Period size: 20 Copynumber: 3.9 Consensus size: 20
1163209 AAAATCGAGC
*
1163219 TGCGAAAACAAAATTCGTGT
1 TGCGAAAAGAAAATTCGTGT
** *
1163239 TGCGATTTAGAAAA-TCTTGT
1 TGCGA-AAAGAAAATTCGTGT
*
1163259 TGCGAAAAGGAAACTT-GTGT
1 TGCGAAAA-GAAAATTCGTGT
1163279 TGCGAAAA-AGAAATTCG
1 TGCGAAAAGA-AAATTCG
1163296 CGTTACGAAT
Statistics
Matches: 43, Mismatches: 9, Indels: 10
0.69 0.15 0.16
Matches are distributed among these distances:
18 1 0.02
19 5 0.12
20 31 0.72
21 6 0.14
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.27
Consensus pattern (20 bp):
TGCGAAAAGAAAATTCGTGT
Found at i:1163311 original size:21 final size:20
Alignment explanation
Indices: 1163287--1163353 Score: 64
Period size: 20 Copynumber: 3.2 Consensus size: 20
1163277 GTTGCGAAAA
*
1163287 AGAAATTCGCGTTACGAATTC
1 AGAAA-TCGCGTTGCGAATTC
* *
1163308 AGAAATCGAGTTGCGAATTT
1 AGAAATCGCGTTGCGAATTC
*
1163328 GGAAAATCGCGTTGCG-ATTGC
1 AG-AAATCGCGTTGCGAATT-C
1163349 AGAAA
1 AGAAA
1163354 CTGAGTTGCT
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
20 19 0.51
21 18 0.49
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.25
Consensus pattern (20 bp):
AGAAATCGCGTTGCGAATTC
Found at i:1163326 original size:20 final size:20
Alignment explanation
Indices: 1163287--1163367 Score: 58
Period size: 20 Copynumber: 4.0 Consensus size: 20
1163277 GTTGCGAAAA
* *
1163287 AGAAATTCGCGTTACGAATTC
1 AGAAA-TCGAGTTGCGAATTC
*
1163308 AGAAATCGAGTTGCGAATTT
1 AGAAATCGAGTTGCGAATTC
* *
1163328 GGAAAATCGCGTTGCG-ATTGC
1 AG-AAATCGAGTTGCGAATT-C
*
1163349 AGAAA-CTGAGTTGCTAATT
1 AGAAATC-GAGTTGCGAATT
1163368 TGGAAACTGT
Statistics
Matches: 47, Mismatches: 9, Indels: 8
0.73 0.14 0.12
Matches are distributed among these distances:
19 1 0.02
20 25 0.53
21 21 0.45
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (20 bp):
AGAAATCGAGTTGCGAATTC
Found at i:1163352 original size:41 final size:41
Alignment explanation
Indices: 1163288--1163373 Score: 113
Period size: 41 Copynumber: 2.1 Consensus size: 41
1163278 TTGCGAAAAA
*
1163288 GAAATTCGCGTTACGAATTCAGAAA-TCGAGTTGCGAATTTG
1 GAAAATCGCGTTACGAATTCAGAAACT-GAGTTGCGAATTTG
* *
1163329 GAAAATCGCGTTGCG-ATTGCAGAAACTGAGTTGCTAATTTG
1 GAAAATCGCGTTACGAATT-CAGAAACTGAGTTGCGAATTTG
1163370 GAAA
1 GAAA
1163374 CTGTGTTGCA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
40 3 0.08
41 36 0.90
42 1 0.03
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (41 bp):
GAAAATCGCGTTACGAATTCAGAAACTGAGTTGCGAATTTG
Found at i:1163390 original size:20 final size:20
Alignment explanation
Indices: 1163350--1163391 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
1163340 TGCGATTGCA
* *
1163350 GAAACTGAGTTGCTAATTTG
1 GAAACTGAGTTGCAAAATTG
*
1163370 GAAACTGTGTTGCAAAATTG
1 GAAACTGAGTTGCAAAATTG
1163390 GA
1 GA
1163392 GTTCGCGTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (20 bp):
GAAACTGAGTTGCAAAATTG
Found at i:1163885 original size:14 final size:14
Alignment explanation
Indices: 1163875--1163927 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
1163865 CAAAAATGCA
1163875 GGAAATTAAATAAT
1 GGAAATTAAATAAT
** *
1163889 GGAAATTAAAGGAC
1 GGAAATTAAATAAT
* *
1163903 GAAAATGTAAATTAT
1 GGAAAT-TAAATAAT
1163918 GGAAATTAAA
1 GGAAATTAAA
1163928 GATTGAAATT
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
14 20 0.67
15 10 0.33
ACGTcount: A:0.55, C:0.02, G:0.19, T:0.25
Consensus pattern (14 bp):
GGAAATTAAATAAT
Found at i:1164053 original size:29 final size:29
Alignment explanation
Indices: 1163968--1164054 Score: 77
Period size: 29 Copynumber: 3.0 Consensus size: 29
1163958 GGGAAACATA
* * * * *
1163968 TAAATAACAGAAAATAAAATGGCTGAAATT
1 TAAATAAAAGAAATTAAAGT-GTTGAAATG
* * *
1163998 TAAATAATAGAAAGTT-AAGGGTAGAAATG
1 TAAATAAAAGAAA-TTAAAGTGTTGAAATG
1164027 TAAATAAAAGAAATTAAAGTGTTGAAAT
1 TAAATAAAAGAAATTAAAGTGTTGAAAT
1164055 ATAATTGAAG
Statistics
Matches: 45, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
28 2 0.04
29 28 0.62
30 14 0.31
31 1 0.02
ACGTcount: A:0.55, C:0.02, G:0.17, T:0.25
Consensus pattern (29 bp):
TAAATAAAAGAAATTAAAGTGTTGAAATG
Found at i:1164101 original size:30 final size:30
Alignment explanation
Indices: 1164041--1164136 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
1164031 TAAAAGAAAT
* **
1164041 TAAAG-TGTTGAAATAT-AATTGAAGGGAAA
1 TAAAGATGATGAAATATAAATT-AAGAAAAA
*
1164070 TAAAGATGCTGAAATATAAATTAAGAAAAA
1 TAAAGATGATGAAATATAAATTAAGAAAAA
* * * *
1164100 TAAAGGTGATGGAACATAAATAAAGAAAAA
1 TAAAGATGATGAAATATAAATTAAGAAAAA
1164130 TAAAGAT
1 TAAAGAT
1164137 AGGGAATTAA
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
29 5 0.09
30 47 0.84
31 4 0.07
ACGTcount: A:0.56, C:0.02, G:0.19, T:0.23
Consensus pattern (30 bp):
TAAAGATGATGAAATATAAATTAAGAAAAA
Found at i:1164983 original size:23 final size:23
Alignment explanation
Indices: 1164953--1165002 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
1164943 CAAAACATAT
*
1164953 TAGGTAGCTCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATGTAA
*
1164976 TAGGTAGCGCTTATTTAATGTAA
1 TAGGTAGCGCTTATATAATGTAA
1164999 TAGG
1 TAGG
1165003 CATTTAACCG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAATGTAA
Found at i:1165524 original size:73 final size:72
Alignment explanation
Indices: 1165398--1165533 Score: 188
Period size: 73 Copynumber: 1.9 Consensus size: 72
1165388 TACAAATGTA
* * *
1165398 TCGACACTTTATGGTTGCACCCTTTTTAGTATTCATTCTGGACCAAAAGTATCGACACAAATTTA
1 TCGACACTTTATGGTTGCACCCTTTGTAGCATTCATCCTGGACCAAAAGTATCGACACAAATTTA
1165463 TCAAGTG
66 TCAAGTG
1165470 TCGACACTTTATGCG-TGCACCTCGTTTGT-GCATTCATCCTGGA-CAATAAGTATCGACACAAA
1 TCGACACTTTATG-GTTGCACC-C-TTTGTAGCATTCATCCTGGACCAA-AAGTATCGACACAAA
1165532 TT
62 TT
1165534 ACACAAGTGT
Statistics
Matches: 57, Mismatches: 3, Indels: 7
0.85 0.04 0.10
Matches are distributed among these distances:
72 22 0.39
73 31 0.54
74 4 0.07
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (72 bp):
TCGACACTTTATGGTTGCACCCTTTGTAGCATTCATCCTGGACCAAAAGTATCGACACAAATTTA
TCAAGTG
Found at i:1170049 original size:3 final size:3
Alignment explanation
Indices: 1170041--1170087 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
1170031 ACTTGTTTGG
* *
1170041 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC GTC ATC GTC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1170088 ATTCATCGTC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.30, C:0.32, G:0.04, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:1171929 original size:201 final size:201
Alignment explanation
Indices: 1171581--1172119 Score: 970
Period size: 201 Copynumber: 2.7 Consensus size: 201
1171571 TATTTAAATT
* *
1171581 AGTATCGACACGAAATTAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGT
1 AGTATCGACACAAAATTAAACAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGT
1171646 ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATACTTATGGATGCATATGTTTCTG
66 ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATACTTATGGATGCATATGTTTCTG
* * *
1171711 GGATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTGTGG
131 GGATCGACACCTTTTGAAAATGTATCAACACTTTATGCGTTCACCCTTTTTGGCATCCATTCTGG
1171776 ACCAAA
196 ACCAAA
* *
1171782 AGTATCGACACAAAATTAAACAAGTTTCGATATATGTTGTAGACCTATTCTCTCATAAAACCGGT
1 AGTATCGACACAAAATTAAACAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGT
1171847 ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATACTTATGGATGCATATGTTTCTG
66 ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATACTTATGGATGCATATGTTTCTG
*
1171912 GGATCGACACCTTTTGAAAATGTATCAACACTTTATGCGTTCACCCTTTTTGGCATCTATTCTGG
131 GGATCGACACCTTTTGAAAATGTATCAACACTTTATGCGTTCACCCTTTTTGGCATCCATTCTGG
1171977 ACCAAA
196 ACCAAA
* *
1171983 ATTATCGACACAAATTTAAACAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGT
1 AGTATCGACACAAAATTAAACAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGT
* *
1172048 ATATTTATACCGGTTACATTGTAAATTTACGTATTACATTATACTTATGGATACATATGTTTCTG
66 ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATACTTATGGATGCATATGTTTCTG
1172113 GGATCGA
131 GGATCGA
1172120 TAAATTTTAC
Statistics
Matches: 324, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
201 324 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (201 bp):
AGTATCGACACAAAATTAAACAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGT
ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATACTTATGGATGCATATGTTTCTG
GGATCGACACCTTTTGAAAATGTATCAACACTTTATGCGTTCACCCTTTTTGGCATCCATTCTGG
ACCAAA
Found at i:1174153 original size:33 final size:33
Alignment explanation
Indices: 1174116--1174181 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
1174106 CATCTTAAGA
*
1174116 TCACCCCTTAACACCTCAACTTCTTTCACCACT
1 TCACCCCTCAACACCTCAACTTCTTTCACCACT
*
1174149 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCTCAACTTCTTTCACCACT
1174182 CCATCGATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.23, C:0.47, G:0.00, T:0.30
Consensus pattern (33 bp):
TCACCCCTCAACACCTCAACTTCTTTCACCACT
Found at i:1174240 original size:21 final size:21
Alignment explanation
Indices: 1174215--1174279 Score: 94
Period size: 21 Copynumber: 3.1 Consensus size: 21
1174205 CCCCTTATGC
*
1174215 CTCTCAAGTGTATCTTTGACT
1 CTCTCAAGTTTATCTTTGACT
* *
1174236 CTCTCAAGTTTTTCTTCGACT
1 CTCTCAAGTTTATCTTTGACT
*
1174257 CTCTCAAGTTTCTCTTTGACT
1 CTCTCAAGTTTATCTTTGACT
1174278 CT
1 CT
1174280 TGATTGTCTT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.15, C:0.28, G:0.11, T:0.46
Consensus pattern (21 bp):
CTCTCAAGTTTATCTTTGACT
Found at i:1176524 original size:20 final size:19
Alignment explanation
Indices: 1176479--1176536 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 19
1176469 CCGGTAGCGC
1176479 TTTACCGGTTTTATCATTT
1 TTTACCGGTTTTATCATTT
*
1176498 TGATACCGGTTTTATCATATT
1 T-TTACCGGTTTTATCAT-TT
* *
1176519 TTTACCTGTTATATCATT
1 TTTACCGGTTTTATCATT
1176537 GTGGATCTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 2 0.06
20 28 0.85
21 3 0.09
ACGTcount: A:0.21, C:0.16, G:0.10, T:0.53
Consensus pattern (19 bp):
TTTACCGGTTTTATCATTT
Found at i:1177572 original size:23 final size:24
Alignment explanation
Indices: 1177528--1177572 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
1177518 ATGTTTAGGT
* * *
1177528 TCAAGTTTGAGTTTTAGGTTTTAA
1 TCAAGTTTAAGTTTAAGATTTTAA
1177552 TCAAG-TTAAGTTTAAGATTTT
1 TCAAGTTTAAGTTTAAGATTTT
1177573 TTTTTCTCGA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 13 0.72
24 5 0.28
ACGTcount: A:0.29, C:0.04, G:0.18, T:0.49
Consensus pattern (24 bp):
TCAAGTTTAAGTTTAAGATTTTAA
Found at i:1177645 original size:32 final size:32
Alignment explanation
Indices: 1177607--1177678 Score: 119
Period size: 31 Copynumber: 2.3 Consensus size: 32
1177597 TAATTCATGA
*
1177607 TTTCGAGTTTGAGTCGAGCTCAATTTCAGAGT
1 TTTCGAGTTCGAGTCGAGCTCAATTTCAGAGT
1177639 TTTCGAG-TCGAGTCGAGCTCAATTTCAGAGT
1 TTTCGAGTTCGAGTCGAGCTCAATTTCAGAGT
*
1177670 TTTTGAGTT
1 TTTCGAGTT
1177679 GATCTCAGTA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
31 29 0.78
32 8 0.22
ACGTcount: A:0.21, C:0.15, G:0.25, T:0.39
Consensus pattern (32 bp):
TTTCGAGTTCGAGTCGAGCTCAATTTCAGAGT
Found at i:1185064 original size:19 final size:19
Alignment explanation
Indices: 1185037--1185089 Score: 97
Period size: 19 Copynumber: 2.8 Consensus size: 19
1185027 AAATTCATTT
*
1185037 CATGTATCGATGCACATAC
1 CATGCATCGATGCACATAC
1185056 CATGCATCGATGCACATAC
1 CATGCATCGATGCACATAC
1185075 CATGCATCGATGCAC
1 CATGCATCGATGCAC
1185090 TCAGGGTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (19 bp):
CATGCATCGATGCACATAC
Found at i:1185129 original size:65 final size:63
Alignment explanation
Indices: 1185057--1185199 Score: 198
Period size: 65 Copynumber: 2.2 Consensus size: 63
1185047 TGCACATACC
* *
1185057 ATGCATCGATGCACATACCATGCATCGATGCACTCAGGGT-TTTATGAAAACATAGAATGCATTT
1 ATGCATCGATGCACA-ACCATGCATCGACGCACTCAGGCTATTT-TG-AAACATAGAATGCATTT
1185121 G
63 G
* * *
1185122 ATGCATCGATGCACCAGCCATGCATCGACGCACTCAGGCTATTTTGAAACATCGAATGCATTTT
1 ATGCATCGATGCA-CAACCATGCATCGACGCACTCAGGCTATTTTGAAACATAGAATGCATTTG
1185186 ATGCATCGATGCAC
1 ATGCATCGATGCAC
1185200 TCTTAGTGCA
Statistics
Matches: 71, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
63 1 0.01
64 29 0.41
65 36 0.51
66 5 0.07
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.27
Consensus pattern (63 bp):
ATGCATCGATGCACAACCATGCATCGACGCACTCAGGCTATTTTGAAACATAGAATGCATTTG
Found at i:1188749 original size:42 final size:42
Alignment explanation
Indices: 1188667--1188775 Score: 164
Period size: 42 Copynumber: 2.5 Consensus size: 42
1188657 TTCAGGACTA
*
1188667 AAATGCGAACCTTGAAAAGTTGACTTAACACATGGGATGTTAACTT
1 AAATGCGAACCTTG--AAG--GACATAACACATGGGATGTTAACTT
*
1188713 AAATGCGAACCTTGAAGGACATAACACATGGGATGTTGACTT
1 AAATGCGAACCTTGAAGGACATAACACATGGGATGTTAACTT
1188755 AAATGCGAACCTTGAAGGACA
1 AAATGCGAACCTTGAAGGACA
1188776 AGTGCTCAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
42 44 0.72
44 3 0.05
46 14 0.23
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.24
Consensus pattern (42 bp):
AAATGCGAACCTTGAAGGACATAACACATGGGATGTTAACTT
Found at i:1189870 original size:3 final size:3
Alignment explanation
Indices: 1189862--1189892 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
1189852 TGAAAACACA
1189862 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1189893 TAAAACTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:1190398 original size:21 final size:19
Alignment explanation
Indices: 1190360--1190405 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
1190350 AATTAATCCT
1190360 ACTAAGTATTAAAGCTAAGA
1 ACTAA-TATTAAAGCTAAGA
1190380 ACTAATATTAAGGAGCTAAGA
1 ACTAATATTAA--AGCTAAGA
1190401 A-TAAT
1 ACTAAT
1190406 TATTCAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.50, C:0.09, G:0.15, T:0.26
Consensus pattern (19 bp):
ACTAATATTAAAGCTAAGA
Found at i:1202592 original size:233 final size:231
Alignment explanation
Indices: 1202161--1203542 Score: 1892
Period size: 233 Copynumber: 5.9 Consensus size: 231
1202151 CAAAGTTATC
* *** * * *
1202161 AAACATACTGCCCAAAGGTCTTGCAGATGGTCTGAAGGACTTATCATCTTGCTCGAAAGACTTAT
1 AAACATCCTG-CCAAAGGTCTTTTGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTTAC
* * * * *
1202226 AAATGACCCGAAGGATTTAAGCATCATGTTCGAAAGACTTATTGATGGTCGAAGGACTTA-CAAT
65 AAATGACCCGAAGGATTTAAGCATCATGCTCAAAAGACTTACTGATGGCCGAAAGACTTACCAA-
* * * *
1202290 TTTTGGAAATAGTTTACTAGATAAGAAACTTTCCTTACTTTTCAACAATTTCAATTTTCATATTT
129 TTTTGGAAATAGTTTACTAGGTAAGAAACTTTTCTTACTTTTCAAAAATTTCAATTTTCAGATTT
* * *
1202355 AAATGAGAAACTTTTCTCATTTTTTGAGAAACATGTGA
194 AAATGAGAAACCTTTCTCATTTTTCGAGAGACATGTGA
* * * *
1202393 AAACATCCTGCGCGAAGGTCTTTTGGATGGCCTGAATGACTTATCATCTTGCTCGAAAGACATAC
1 AAACATCCTGC-CAAAGGTCTTTTGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTTAC
* * * * * * **
1202458 AGATGACCCGAAGGATTTAAGTATCGTGCTCGAAAGACTTACTAATGGACCAAAAGACAAACCAA
65 AAATGACCCGAAGGATTTAAGCATCATGCTCAAAAGACTTACTGATGG-CCGAAAGACTTACCAA
*
1202523 TTTTGGAAATAGTTTACTAGGTAAGAAACTTTTCTTACTTTTTAAAAATTTCAATTTTCAGATTT
129 TTTTGGAAATAGTTTACTAGGTAAGAAACTTTTCTTACTTTTCAAAAATTTCAATTTTCAGATTT
* *
1202588 AAATGAGAAACCTTTCTCATTTGTCGAGAGACATGTGC
194 AAATGAGAAACCTTTCTCATTTTTCGAGAGACATGTGA
* * * *
1202626 AAACATCCTACCCAA-TTCTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTTT
1 AAACATCCTGCCAAAGGTCT-TT-TGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTTA
* *
1202690 CAAAATGACCCGAAAGATTTAAGCATCATGCTCAAAAGATTTACTGATGGCCCGAAAGACTTACC
64 C-AAATGACCCGAAGGATTTAAGCATCATGCTCAAAAGACTTACTGATGG-CCGAAAGACTTACC
* * *
1202755 AATTTTGGAAATAGTTTACTGGGTAAGAAACTTTTTTTACTTTT-AAAAAATTCAATTTTCAGAT
127 AATTTTGGAAATAGTTTACTAGGTAAGAAACTTTTCTTACTTTTCAAAAATTTCAATTTTCAGAT
* * *
1202819 TTAAATGGGAAACATTTCTCACTTTTCGAGAGACATGTGA
192 TTAAATGAGAAACCTTTCTCATTTTTCGAGAGACATGTGA
* *
1202859 AAACATCCTGCCCAAAGGTC-TTTGGATGGCCCGAATGACTTATCATCTTGCTTGAAAGACTTAC
1 AAACATCCTG-CCAAAGGTCTTTTGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTTAC
* * * * *
1202923 AGATGACCCGAAGGATTTAAGCATCGTGCTCGAAAGACTTACTGATGGCTCAAAAGACTTACTAA
65 AAATGACCCGAAGGATTTAAGCATCATGCTCAAAAGACTTACTGATGGC-CGAAAGACTTACCAA
*
1202988 TTTTGGAAATAGTTTACTAGGTAAGAAACTTTTCTTACTTTTTAAAAATTTCAATTTTCAGATTT
129 TTTTGGAAATAGTTTACTAGGTAAGAAACTTTTCTTACTTTTCAAAAATTTCAATTTTCAGATTT
*
1203053 AAATGAGAAACCTTTCTCATTTGTCGAGAGACATGTGA
194 AAATGAGAAACCTTTCTCATTTTTCGAGAGACATGTGA
* ** * *
1203091 AAACATCCTGCCCAATGGTCTTACGGATGGCCCAAAAGACTTATCATCTTGCTCGAAAGACTTAC
1 AAACATCCTG-CCAAAGGTCTTTTGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTTAC
* * *
1203156 AAATGACCCGAAGGATTTAAGCATCATGCTCAAAAGATTTACTGATGGCTTGAAGGACTTACCAA
65 AAATGACCCGAAGGATTTAAGCATCATGCTCAAAAGACTTACTGATGGC-CGAAAGACTTACCAA
* * *
1203221 TTTTGGAAATAGTTTAATAAGTAAGAAACATTTCTTACTTTTCAAAAATTTCAATTTTCAGATTT
129 TTTTGGAAATAGTTTACTAGGTAAGAAACTTTTCTTACTTTTCAAAAATTTCAATTTTCAGATTT
*
1203286 AAATGAGAATCCTTTCTCATTTTTCGAGAGACATGTGA
194 AAATGAGAAACCTTTCTCATTTTTCGAGAGACATGTGA
* *
1203324 AAACATCCTGTCCAAAGGTCTTATGGATGGCCTGAAGGACTTATCATCTTGCTCGAAAGACTTAC
1 AAACATCCTG-CCAAAGGTCTTTTGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTTAC
* * * * *
1203389 ATATGACCTGAAGGATTTAAGCATCATGCTCAAAATACTTACTGATCGCCCGAAGGACTTACCAA
65 AAATGACCCGAAGGATTTAAGCATCATGCTCAAAAGACTTACTGAT-GGCCGAAAGACTTACCAA
* *
1203454 TTTTGGAAATAGTTTACTAGGTAAGAAACTTTTCTTAC-TTTCAAAAATTTCAATTTTTAGACTT
129 TTTTGGAAATAGTTTACTAGGTAAGAAACTTTTCTTACTTTTCAAAAATTTCAATTTTCAGATTT
* **
1203518 AAATGATAAATATTTCTCATTTTTC
194 AAATGAGAAACCTTTCTCATTTTTC
1203543 AACTTGTAAA
Statistics
Matches: 1021, Mismatches: 117, Indels: 24
0.88 0.10 0.02
Matches are distributed among these distances:
230 1 0.00
231 100 0.10
232 259 0.25
233 556 0.54
234 103 0.10
235 2 0.00
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.32
Consensus pattern (231 bp):
AAACATCCTGCCAAAGGTCTTTTGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTTACA
AATGACCCGAAGGATTTAAGCATCATGCTCAAAAGACTTACTGATGGCCGAAAGACTTACCAATT
TTGGAAATAGTTTACTAGGTAAGAAACTTTTCTTACTTTTCAAAAATTTCAATTTTCAGATTTAA
ATGAGAAACCTTTCTCATTTTTCGAGAGACATGTGA
Found at i:1203031 original size:465 final size:465
Alignment explanation
Indices: 1202194--1203539 Score: 2049
Period size: 465 Copynumber: 2.9 Consensus size: 465
1202184 CAGATGGTCT
*
1202194 GAAGGACTTATCATCTTGCTCGAAAGAC-TT-ATAAATGACCCGAAGGATTTAAGCATCATGTTC
1 GAAGGACTTATCATCTTGCTCGAAAGACTTTCA-AAATGACCCGAAGGATTTAAGCATCATGCTC
* * * *
1202257 GAAAGACTTATTGATGG-TCGAAGGACTTA-CAATTTTTGGAAATAGTTTACTAGATAAGAAACT
65 AAAAGATTTACTGATGGCTCGAAGGACTTACCAA-TTTTGGAAATAGTTTACTAGGTAAGAAACT
* * * * * *
1202320 TTCCTTACTTTTCAACAATTTCAATTTTCATATTTAAATGAGAAACTTTTCTCATTTTTTGAGAA
129 TTTCTTACTTTTCAAAAATTTCAATTTTCAGATTTAAATGAGAAACATTTCTCATTTTTCGAGAG
* *
1202385 ACATGTGAAAACATCCTGCGCGAAGGTCTTTTGGATGGCCTGAATGACTTATCATCTTGCTCGAA
194 ACATGTGAAAACATCCTGCCCAAAGGTC-TTTGGATGGCCTGAATGACTTATCATCTTGCTCGAA
* * *
1202450 AGACATACAGATGACCCGAAGGATTTAAGTATCGTGCTCGAAAGACTTACTAATGGACCAAAAGA
258 AGACTTACAGATGACCCGAAGGATTTAAGCATCGTGCTCGAAAGACTTACTGATGG-CCAAAAGA
**
1202515 CAAACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTTCTTACTTTTTAAAAATTTCAATTT
322 CTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTTCTTACTTTTTAAAAATTTCAATTT
* *
1202580 TCAGATTTAAATGAGAAACCTTTCTCATTTGTCGAGAGACATGTGCAAACATCCTACCCAATTCT
387 TCAGATTTAAATGAGAAACCTTTCTCATTTGTCGAGAGACATGTGAAAACATCCTACCCAATGCT
*
1202645 CTTATGGATGGCCC
452 CTTACGGATGGCCC
*
1202659 GAAGGACTTATCATCTTGCTCGAAAGACTTTCAAAATGACCCGAAAGATTTAAGCATCATGCTCA
1 GAAGGACTTATCATCTTGCTCGAAAGACTTTCAAAATGACCCGAAGGATTTAAGCATCATGCTCA
* * *
1202724 AAAGATTTACTGATGGCCCGAAAGACTTACCAATTTTGGAAATAGTTTACTGGGTAAGAAACTTT
66 AAAGATTTACTGATGGCTCGAAGGACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTT
* * * *
1202789 TTTTACTTTT-AAAAAATTCAATTTTCAGATTTAAATGGGAAACATTTCTCACTTTTCGAGAGAC
131 TCTTACTTTTCAAAAATTTCAATTTTCAGATTTAAATGAGAAACATTTCTCATTTTTCGAGAGAC
* *
1202853 ATGTGAAAACATCCTGCCCAAAGGTCTTTGGATGGCCCGAATGACTTATCATCTTGCTTGAAAGA
196 ATGTGAAAACATCCTGCCCAAAGGTCTTTGGATGGCCTGAATGACTTATCATCTTGCTCGAAAGA
1202918 CTTACAGATGACCCGAAGGATTTAAGCATCGTGCTCGAAAGACTTACTGATGGCTCAAAAGACTT
261 CTTACAGATGACCCGAAGGATTTAAGCATCGTGCTCGAAAGACTTACTGATGGC-CAAAAGACTT
*
1202983 ACTAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTTCTTACTTTTTAAAAATTTCAATTTTCA
325 ACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTTCTTACTTTTTAAAAATTTCAATTTTCA
* *
1203048 GATTTAAATGAGAAACCTTTCTCATTTGTCGAGAGACATGTGAAAACATCCTGCCCAATGGTCTT
390 GATTTAAATGAGAAACCTTTCTCATTTGTCGAGAGACATGTGAAAACATCCTACCCAATGCTCTT
1203113 ACGGATGGCCC
455 ACGGATGGCCC
* * *
1203124 AAAAGACTTATCATCTTGCTCGAAAGACTTAC-AAATGACCCGAAGGATTTAAGCATCATGCTCA
1 GAAGGACTTATCATCTTGCTCGAAAGACTTTCAAAATGACCCGAAGGATTTAAGCATCATGCTCA
* * * *
1203188 AAAGATTTACTGATGGCTTGAAGGACTTACCAATTTTGGAAATAGTTTAATAAGTAAGAAACATT
66 AAAGATTTACTGATGGCTCGAAGGACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTT
* *
1203253 TCTTACTTTTCAAAAATTTCAATTTTCAGATTTAAATGAGAATCCTTTCTCATTTTTCGAGAGAC
131 TCTTACTTTTCAAAAATTTCAATTTTCAGATTTAAATGAGAAACATTTCTCATTTTTCGAGAGAC
* *
1203318 ATGTGAAAACATCCTGTCCAAAGGTCTTATGGATGGCCTGAAGGACTTATCATCTTGCTCGAAAG
196 ATGTGAAAACATCCTGCCCAAAGGTCTT-TGGATGGCCTGAATGACTTATCATCTTGCTCGAAAG
* * * * * * * *
1203383 ACTTACATATGACCTGAAGGATTTAAGCATCATGCTCAAAATACTTACTGATCGCCCGAAGGACT
260 ACTTACAGATGACCCGAAGGATTTAAGCATCGTGCTCGAAAGACTTACTGAT-GGCCAAAAGACT
* *
1203448 TACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTTCTTAC-TTTCAAAAATTTCAATTTTT
324 TACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTTCTTACTTTTTAAAAATTTCAATTTTC
* * **
1203512 AGACTTAAATGATAAATATTTCTCATTT
389 AGATTTAAATGAGAAACCTTTCTCATTT
1203540 TTCAACTTGT
Statistics
Matches: 803, Mismatches: 70, Indels: 16
0.90 0.08 0.02
Matches are distributed among these distances:
464 99 0.12
465 405 0.50
466 245 0.31
467 51 0.06
468 3 0.00
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (465 bp):
GAAGGACTTATCATCTTGCTCGAAAGACTTTCAAAATGACCCGAAGGATTTAAGCATCATGCTCA
AAAGATTTACTGATGGCTCGAAGGACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTT
TCTTACTTTTCAAAAATTTCAATTTTCAGATTTAAATGAGAAACATTTCTCATTTTTCGAGAGAC
ATGTGAAAACATCCTGCCCAAAGGTCTTTGGATGGCCTGAATGACTTATCATCTTGCTCGAAAGA
CTTACAGATGACCCGAAGGATTTAAGCATCGTGCTCGAAAGACTTACTGATGGCCAAAAGACTTA
CCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTTCTTACTTTTTAAAAATTTCAATTTTCAG
ATTTAAATGAGAAACCTTTCTCATTTGTCGAGAGACATGTGAAAACATCCTACCCAATGCTCTTA
CGGATGGCCC
Found at i:1211917 original size:2 final size:2
Alignment explanation
Indices: 1211912--1211939 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1211902 ATAACAAATA
1211912 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1211940 CTTTAAAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1213487 original size:3 final size:3
Alignment explanation
Indices: 1213479--1213510 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
1213469 CTGAAAACAC
1213479 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1213511 CAAAACTACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:1215307 original size:18 final size:17
Alignment explanation
Indices: 1215282--1215473 Score: 170
Period size: 18 Copynumber: 10.8 Consensus size: 17
1215272 AACTGACTTC
1215282 GCTGAAACTGTTAGGGT
1 GCTGAAACTGTTAGGGT
1215299 GCATGAAACTGTTAGGGT
1 GC-TGAAACTGTTAGGGT
*
1215317 GGCTGAAACTATTAGGGT
1 -GCTGAAACTGTTAGGGT
1215335 GCATGAAACTGTTAGGGT
1 GC-TGAAACTGTTAGGGT
1215353 AGCTGAAACTGTTAGGGT
1 -GCTGAAACTGTTAGGGT
* * *
1215371 AGTTGAAACTATTATGGTT
1 -GCTGAAACTGTTA-GGGT
* *
1215390 GTTGAAACTGGTAGGGAT
1 GCTGAAACTGTTAGGG-T
*
1215408 -CTTGAAACTGTTTGGGT
1 GC-TGAAACTGTTAGGGT
* *
1215425 GGCTGAAACTATTAAGGTT
1 -GCTGAAACTGTT-AGGGT
* * *
1215444 ACTGAAACTTTTAGGTT
1 GCTGAAACTGTTAGGGT
*
1215461 GCTAAAACTGTTA
1 GCTGAAACTGTTA
1215474 AGGTTATTGA
Statistics
Matches: 146, Mismatches: 19, Indels: 20
0.79 0.10 0.11
Matches are distributed among these distances:
17 22 0.15
18 113 0.77
19 11 0.08
ACGTcount: A:0.28, C:0.10, G:0.29, T:0.32
Consensus pattern (17 bp):
GCTGAAACTGTTAGGGT
Found at i:1215325 original size:36 final size:35
Alignment explanation
Indices: 1215282--1215495 Score: 189
Period size: 36 Copynumber: 6.0 Consensus size: 35
1215272 AACTGACTTC
1215282 GCTGAAACTGTTAGGGTGCATGAAACTGTTAGGGTG
1 GCTGAAACTGTTAGGGT-CATGAAACTGTTAGGGTG
* *
1215318 GCTGAAACTATTAGGGTGCATGAAACTGTTAGGGTA
1 GCTGAAACTGTTAGGGT-CATGAAACTGTTAGGGTG
* * *
1215354 GCTGAAACTGTTAGGGT-AGTTGAAACTATTATGGTT
1 GCTGAAACTGTTAGGGTCA--TGAAACTGTTAGGGTG
* * * *
1215390 GTTGAAACTGGTAGGGATCTTGAAACTGTTTGGGTG
1 GCTGAAACTGTTAGGG-TCATGAAACTGTTAGGGTG
* * * * *
1215426 GCTGAAACTATTAAGGTTACTGAAACTTTTA-GGTT
1 GCTGAAACTGTTAGGGTCA-TGAAACTGTTAGGGTG
* * * *
1215461 GCTAAAACTGTTAAGGTTATTGAAACTTTTAGGGT
1 GCTGAAACTGTTAGGGTCA-TGAAACTGTTAGGGT
1215496 TGTTGGAACT
Statistics
Matches: 147, Mismatches: 25, Indels: 12
0.80 0.14 0.07
Matches are distributed among these distances:
34 1 0.01
35 32 0.22
36 113 0.77
37 1 0.01
ACGTcount: A:0.28, C:0.10, G:0.29, T:0.33
Consensus pattern (35 bp):
GCTGAAACTGTTAGGGTCATGAAACTGTTAGGGTG
Found at i:1215346 original size:54 final size:52
Alignment explanation
Indices: 1215284--1215473 Score: 211
Period size: 54 Copynumber: 3.5 Consensus size: 52
1215274 CTGACTTCGC
1215284 TGAAACTGTTAGGGTGCATGAAACTGTTAGGGTGGCTGAAACTATTAGGGTGCA
1 TGAAACTGTTAGGGTGC-TGAAACTGTTAGGGTGGCTGAAACTATTAGGGTG-A
* * * *
1215338 TGAAACTGTTAGGGTAGCTGAAACTGTTAGGGTAGTTGAAACTATTATGGTTGT
1 TGAAACTGTTAGGGT-GCTGAAACTGTTAGGGTGGCTGAAACTATTA-GGGTGA
* * * *
1215392 TGAAACTGGTAGGGAT-CTTGAAACTGTTTGGGTGGCTGAAACTATTAAGGTTA
1 TGAAACTGTTAGGG-TGC-TGAAACTGTTAGGGTGGCTGAAACTATTAGGGTGA
* * *
1215445 CTGAAACTTTTAGGTTGCTAAAACTGTTA
1 -TGAAACTGTTAGGGTGCTGAAACTGTTA
1215474 AGGTTATTGA
Statistics
Matches: 113, Mismatches: 17, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
53 13 0.12
54 93 0.82
55 7 0.06
ACGTcount: A:0.28, C:0.10, G:0.29, T:0.33
Consensus pattern (52 bp):
TGAAACTGTTAGGGTGCTGAAACTGTTAGGGTGGCTGAAACTATTAGGGTGA
Found at i:1215468 original size:17 final size:17
Alignment explanation
Indices: 1215439--1215493 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
1215429 GAAACTATTA
*
1215439 AGGTTACTGAAACTTTT
1 AGGTTACTAAAACTTTT
* *
1215456 AGGTTGCTAAAACTGTTA
1 AGGTTACTAAAACT-TTT
* *
1215474 AGGTTATTGAAACTTTT
1 AGGTTACTAAAACTTTT
1215491 AGG
1 AGG
1215494 GTTGTTGGAA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 17 0.57
18 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.38
Consensus pattern (17 bp):
AGGTTACTAAAACTTTT
Found at i:1215475 original size:35 final size:35
Alignment explanation
Indices: 1215410--1215493 Score: 114
Period size: 35 Copynumber: 2.4 Consensus size: 35
1215400 GTAGGGATCT
* *
1215410 TGAAACTGTTTGGGTGGCTGAAACTATTAAGGTTAC
1 TGAAACT-TTTAGGTGGCTAAAACTATTAAGGTTAC
* * *
1215446 TGAAACTTTTAGGTTGCTAAAACTGTTAAGGTTAT
1 TGAAACTTTTAGGTGGCTAAAACTATTAAGGTTAC
1215481 TGAAACTTTTAGG
1 TGAAACTTTTAGG
1215494 GTTGTTGGAA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
35 36 0.84
36 7 0.16
ACGTcount: A:0.30, C:0.10, G:0.24, T:0.37
Consensus pattern (35 bp):
TGAAACTTTTAGGTGGCTAAAACTATTAAGGTTAC
Found at i:1215486 original size:18 final size:18
Alignment explanation
Indices: 1215338--1215506 Score: 74
Period size: 18 Copynumber: 9.4 Consensus size: 18
1215328 TTAGGGTGCA
* *
1215338 TGAAACTGTT-AGGGTAGC
1 TGAAACTGTTAAGGTTA-T
*
1215356 TGAAACTGTT-AGGGTAGT
1 TGAAACTGTTAAGGTTA-T
* * *
1215374 TGAAACTATTATGGTTGT
1 TGAAACTGTTAAGGTTAT
* * * *
1215392 TGAAACTGGTAGGGATCT
1 TGAAACTGTTAAGGTTAT
** ***
1215410 TGAAACTGTTTGGGTGGC
1 TGAAACTGTTAAGGTTAT
* *
1215428 TGAAACTATTAAGGTTAC
1 TGAAACTGTTAAGGTTAT
* **
1215446 TGAAACT-TTTAGGTTGC
1 TGAAACTGTTAAGGTTAT
*
1215463 TAAAACTGTTAAGGTTAT
1 TGAAACTGTTAAGGTTAT
* * *
1215481 TGAAACTTTTAGGGTTGT
1 TGAAACTGTTAAGGTTAT
*
1215499 TGGAACTG
1 TGAAACTG
1215507 ATGGAAATTT
Statistics
Matches: 116, Mismatches: 33, Indels: 4
0.76 0.22 0.03
Matches are distributed among these distances:
17 14 0.12
18 99 0.85
19 3 0.03
ACGTcount: A:0.28, C:0.09, G:0.28, T:0.36
Consensus pattern (18 bp):
TGAAACTGTTAAGGTTAT
Found at i:1217396 original size:40 final size:40
Alignment explanation
Indices: 1217285--1217398 Score: 129
Period size: 40 Copynumber: 2.8 Consensus size: 40
1217275 TGTTAACAAT
* ** * **
1217285 GTTGAATGTTTTACTTGCTTGAAAATGTTAAATGGGTTATTG
1 GTTGAATG--TTAATTGCTTGAATGTGTTAACTGAATTATTG
*
1217327 GTTGAATGTTAATTGCTTGAATTTGTTAACTGAATTATTG
1 GTTGAATGTTAATTGCTTGAATGTGTTAACTGAATTATTG
* *
1217367 GTTGAATGTTAATTGTTTGGATGTGTTAACTG
1 GTTGAATGTTAATTGCTTGAATGTGTTAACTG
1217399 GAATATTCTT
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
40 55 0.87
42 8 0.13
ACGTcount: A:0.25, C:0.04, G:0.24, T:0.46
Consensus pattern (40 bp):
GTTGAATGTTAATTGCTTGAATGTGTTAACTGAATTATTG
Found at i:1218954 original size:66 final size:67
Alignment explanation
Indices: 1218879--1219003 Score: 198
Period size: 67 Copynumber: 1.9 Consensus size: 67
1218869 TACAAGACAT
*
1218879 TTCATTCATAATAGTT-AACATAATGTCCTCAACAAAATATCAACGAATAAACAAATACCTTAAC
1 TTCATTCATAATAGTTAAACATAATATCCTCAACAAAATATCAACGAATAAACAAATACCTTAAC
1218943 AC
66 AC
* * * *
1218945 TTCATTCATAATAGTTAAACATAATATCCTTAACCAAATATCAATGGATAAACAAATAC
1 TTCATTCATAATAGTTAAACATAATATCCTCAACAAAATATCAACGAATAAACAAATAC
1219004 AATTGACAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
66 16 0.30
67 37 0.70
ACGTcount: A:0.47, C:0.19, G:0.05, T:0.29
Consensus pattern (67 bp):
TTCATTCATAATAGTTAAACATAATATCCTCAACAAAATATCAACGAATAAACAAATACCTTAAC
AC
Found at i:1219021 original size:66 final size:64
Alignment explanation
Indices: 1218885--1219042 Score: 167
Period size: 67 Copynumber: 2.4 Consensus size: 64
1218875 ACATTTCATT
* * **
1218885 CATAATAGTTAACATAATGTCCTCAACAAAATATCAACGAATAAACAAATACCTTAACACTTCAT
1 CATAATAGTTAACATAAT-TCCTTAACAAAATATCAACGAATAAACAAATACATTAACAC-AAAT
*
1218950 T
64 G
* * * *
1218951 CATAATAGTTAAACATAATATCCTTAACCAAATATCAATGGATAAACAAATACAATTGACA-AAA
1 CATAATAGTT-AACATAAT-TCCTTAACAAAATATCAACGAATAAACAAATAC-ATTAACACAAA
1219015 TG
63 TG
*
1219017 CATAATACTTAACATAATT-CTTAACA
1 CATAATAGTTAACATAATTCCTTAACA
1219043 TTTTATAAGT
Statistics
Matches: 78, Mismatches: 12, Indels: 7
0.80 0.12 0.07
Matches are distributed among these distances:
63 6 0.08
64 1 0.01
65 8 0.10
66 21 0.27
67 37 0.47
68 5 0.06
ACGTcount: A:0.49, C:0.18, G:0.05, T:0.28
Consensus pattern (64 bp):
CATAATAGTTAACATAATTCCTTAACAAAATATCAACGAATAAACAAATACATTAACACAAATG
Found at i:1221178 original size:22 final size:22
Alignment explanation
Indices: 1221131--1221182 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 22
1221121 GTAATCACCA
*
1221131 CATATTA-ATAAAAAAATAATT
1 CATATTATTTAAAAAAATAATT
* * *
1221152 AATATTATTTAAAATAATATTT
1 CATATTATTTAAAAAAATAATT
1221174 CATA-TATTT
1 CATATTATTT
1221183 TAGACTTTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
21 11 0.44
22 14 0.56
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (22 bp):
CATATTATTTAAAAAAATAATT
Found at i:1223921 original size:16 final size:16
Alignment explanation
Indices: 1223897--1223929 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
1223887 CTTTAGAAAA
*
1223897 TGATTCCCCTACATGC
1 TGATGCCCCTACATGC
1223913 TGATGCCCCTACATGC
1 TGATGCCCCTACATGC
1223929 T
1 T
1223930 ACCCTGGGCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.36, G:0.15, T:0.30
Consensus pattern (16 bp):
TGATGCCCCTACATGC
Found at i:1224357 original size:25 final size:25
Alignment explanation
Indices: 1224316--1224382 Score: 70
Period size: 24 Copynumber: 2.8 Consensus size: 25
1224306 TATCTCTCAT
*
1224316 TTCATCTTCTT-TCCTTCATTTTCTC
1 TTCAT-TTCTTATTCTTCATTTTCTC
1224341 TTCATTTCTTATTCTTCA-TTTCTC
1 TTCATTTCTTATTCTTCATTTTCTC
* *
1224365 TAC-CTT-TTATTCTTCATT
1 TTCATTTCTTATTCTTCATT
1224383 ATTCCACCCA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
22 10 0.27
23 3 0.08
24 13 0.35
25 11 0.30
ACGTcount: A:0.12, C:0.27, G:0.00, T:0.61
Consensus pattern (25 bp):
TTCATTTCTTATTCTTCATTTTCTC
Found at i:1224953 original size:41 final size:41
Alignment explanation
Indices: 1224908--1225416 Score: 534
Period size: 41 Copynumber: 12.3 Consensus size: 41
1224898 CGTTTTTTCA
* * * * * *
1224908 ACAAATGCCGCAAAAGAGTAGTACTTTAGTGGCGTTTTAAT
1 ACAAACGCCGCTAAAGACTCGTACTTTAGTGGCATTTTTAT
*
1224949 ACAAACGCCGCTAAAGACTCGTAATTTAGTGGCATTTTTAT
1 ACAAACGCCGCTAAAGACTCGTACTTTAGTGGCATTTTTAT
* * * *
1224990 ACAAACGCCGCTATAGAATTGTACTTTAGTGGCGTTTTTAT
1 ACAAACGCCGCTAAAGACTCGTACTTTAGTGGCATTTTTAT
* * * * * *
1225031 ACAAACGCCGTTATACACAT-GTACTATAGTGGCGTTTGTGTTT
1 ACAAACGCCGCTAAAGAC-TCGTACTTTAGTGGCATTT-T-TAT
* * *
1225074 ACAAACGCCGCTAAAGACTCATAATTTAGTGGCGTTTTTAT
1 ACAAACGCCGCTAAAGACTCGTACTTTAGTGGCATTTTTAT
* * *
1225115 ACAAATGCCGCTAAAAACTCATACTTTAGTGGCATTTTTAT
1 ACAAACGCCGCTAAAGACTCGTACTTTAGTGGCATTTTTAT
* *
1225156 ACAAACTCCGCTAAAGACGCGTACTTTAGTGGCATTTTTAT
1 ACAAACGCCGCTAAAGACTCGTACTTTAGTGGCATTTTTAT
* * * * * * *
1225197 TCAAACGCCGTTATACACTTGTACTATAGTGGCATTTGTGTTT
1 ACAAACGCCGCTAAAGACTCGTACTTTAGTGGCATTT-T-TAT
* * *
1225240 ACAAACGTCGTTAAAGACTCGTAATTTAGTGGCATTTTTAT
1 ACAAACGCCGCTAAAGACTCGTACTTTAGTGGCATTTTTAT
* * *
1225281 TCAAACGCCGCTAAAGACTCGTACTTTATTGACATTTTTAT
1 ACAAACGCCGCTAAAGACTCGTACTTTAGTGGCATTTTTAT
*
1225322 ACAAACGCCGCTAAAGACTCGTACTTTAGTGGCGTTTTTAT
1 ACAAACGCCGCTAAAGACTCGTACTTTAGTGGCATTTTTAT
* * * * * * *
1225363 TCAAACGCCGCTATACACTTGTACTATAGTGGCGTTTGTGTTT
1 ACAAACGCCGCTAAAGACTCGTACTTTAGTGGCATTT-T-TAT
1225406 ACAAACGCCGC
1 ACAAACGCCGC
1225417 AAGTTTACAA
Statistics
Matches: 393, Mismatches: 67, Indels: 14
0.83 0.14 0.03
Matches are distributed among these distances:
41 311 0.79
42 7 0.02
43 75 0.19
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.34
Consensus pattern (41 bp):
ACAAACGCCGCTAAAGACTCGTACTTTAGTGGCATTTTTAT
Found at i:1225113 original size:125 final size:122
Alignment explanation
Indices: 1224860--1225416 Score: 492
Period size: 125 Copynumber: 4.5 Consensus size: 122
1224850 TTTAGCATCG
* * ** * * * * *
1224860 TTTTTATAAAAACGCCGCAATAGGTTCAT-CTATAGTGGCGTTTTT-TCAACAAATGCCGCAAAA
1 TTTTTATACAAACGCCGCTATAGAATCGTACTTTAGTGGCATTTTTAT--ACAAACGCCGCTAAA
* * **
1224923 GAGTAGTACTTTAGTGGCGTTTTAATACAAACGCCGCTAAAGACTCGTAATTTAGTGGCA
64 GACT-GTACTTTAGTGGCATTTTTTTACAAACGCCGCTAAAGACTCGTAATTTAGTGGCA
* * * * *
1224983 TTTTTATACAAACGCCGCTATAGAATTGTACTTTAGTGGCGTTTTTATACAAACGCCGTTATACA
1 TTTTTATACAAACGCCGCTATAGAATCGTACTTTAGTGGCATTTTTATACAAACGCCGCTAAAGA
* * * *
1225048 CATGTACTATAGTGGCGTTTGTGTTTACAAACGCCGCTAAAGACTCATAATTTAGTGGCG
66 C-TGTACTTTAGTGGCATTT-T-TTTACAAACGCCGCTAAAGACTCGTAATTTAGTGGCA
* * * *
1225108 TTTTTATACAAATGCCGCTA-AAAACTCATACTTTAGTGGCATTTTTATACAAACTCCGCTAAAG
1 TTTTTATACAAACGCCGCTATAGAA-TCGTACTTTAGTGGCATTTTTATACAAACGCCGCTAAAG
* * * * * * *
1225172 ACGCGTACTTTAGTGGCATTTTTATT-CAAACGCCGTTATACACTTGTACTATAGTGGCA
65 AC-TGTACTTTAGTGGCATTTTT-TTACAAACGCCGCTAAAGACTCGTAATTTAGTGGCA
* * * * * * *
1225231 TTTGTGTTTACAAACGTCGTTAAAGACTCGTAATTTAGTGGCATTTTTATTCAAACGCCGCTAAA
1 TTT-T-TATACAAACGCCGCTATAGAATCGTACTTTAGTGGCATTTTTATACAAACGCCGCTAAA
* * * * *
1225296 GACTCGTACTTTATTGACATTTTTATACAAACGCCGCTAAAGACTCGTACTTTAGTGGCG
64 GACT-GTACTTTAGTGGCATTTTTTTACAAACGCCGCTAAAGACTCGTAATTTAGTGGCA
* * * * * * *
1225356 TTTTTATTCAAACGCCGCTATACACTTGTACTATAGTGGCGTTTGTGTTTACAAACGCCGC
1 TTTTTATACAAACGCCGCTATAGAATCGTACTTTAGTGGCATTT-T-TATACAAACGCCGC
1225417 AAGTTTACAA
Statistics
Matches: 349, Mismatches: 71, Indels: 26
0.78 0.16 0.06
Matches are distributed among these distances:
123 110 0.32
124 27 0.08
125 210 0.60
126 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (122 bp):
TTTTTATACAAACGCCGCTATAGAATCGTACTTTAGTGGCATTTTTATACAAACGCCGCTAAAGA
CTGTACTTTAGTGGCATTTTTTTACAAACGCCGCTAAAGACTCGTAATTTAGTGGCA
Found at i:1225127 original size:166 final size:166
Alignment explanation
Indices: 1224889--1225416 Score: 774
Period size: 166 Copynumber: 3.2 Consensus size: 166
1224879 ATAGGTTCAT
* * * * * *
1224889 CTATAGTGGCGTTT-T-TTCAACAAATGCCGCAAAAGAGT-AGTACTTTAGTGGCGTTTTAATAC
1 CTATAGTGGCGTTTGTGTT-TACAAACGCCGCTAAAGACTCA-TAATTTAGTGGCGTTTTTATAC
* * * *
1224951 AAACGCCGCTAAAGACTCGTAATTTAGTGGCATTTTTATACAAACGCCGCTATAGAATTGTACTT
64 AAACGCCGCTAAAGACTCGTACTTTAGTGGCATTTTTATACAAACGCCGCTAAAGACTCGTACTT
* *
1225016 TAGTGGCGTTTTTATACAAACGCCGTTATACACATGTA
129 TAGTGGCGTTTTTATTCAAACGCCGTTATACACTTGTA
1225054 CTATAGTGGCGTTTGTGTTTACAAACGCCGCTAAAGACTCATAATTTAGTGGCGTTTTTATACAA
1 CTATAGTGGCGTTTGTGTTTACAAACGCCGCTAAAGACTCATAATTTAGTGGCGTTTTTATACAA
* * * * *
1225119 ATGCCGCTAAAAACTCATACTTTAGTGGCATTTTTATACAAACTCCGCTAAAGACGCGTACTTTA
66 ACGCCGCTAAAGACTCGTACTTTAGTGGCATTTTTATACAAACGCCGCTAAAGACTCGTACTTTA
*
1225184 GTGGCATTTTTATTCAAACGCCGTTATACACTTGTA
131 GTGGCGTTTTTATTCAAACGCCGTTATACACTTGTA
* * * * * *
1225220 CTATAGTGGCATTTGTGTTTACAAACGTCGTTAAAGACTCGTAATTTAGTGGCATTTTTATTCAA
1 CTATAGTGGCGTTTGTGTTTACAAACGCCGCTAAAGACTCATAATTTAGTGGCGTTTTTATACAA
* *
1225285 ACGCCGCTAAAGACTCGTACTTTATTGACATTTTTATACAAACGCCGCTAAAGACTCGTACTTTA
66 ACGCCGCTAAAGACTCGTACTTTAGTGGCATTTTTATACAAACGCCGCTAAAGACTCGTACTTTA
*
1225350 GTGGCGTTTTTATTCAAACGCCGCTATACACTTGTA
131 GTGGCGTTTTTATTCAAACGCCGTTATACACTTGTA
1225386 CTATAGTGGCGTTTGTGTTTACAAACGCCGC
1 CTATAGTGGCGTTTGTGTTTACAAACGCCGC
1225417 AAGTTTACAA
Statistics
Matches: 324, Mismatches: 36, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
165 14 0.04
166 307 0.95
167 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (166 bp):
CTATAGTGGCGTTTGTGTTTACAAACGCCGCTAAAGACTCATAATTTAGTGGCGTTTTTATACAA
ACGCCGCTAAAGACTCGTACTTTAGTGGCATTTTTATACAAACGCCGCTAAAGACTCGTACTTTA
GTGGCGTTTTTATTCAAACGCCGTTATACACTTGTA
Found at i:1225395 original size:207 final size:207
Alignment explanation
Indices: 1224908--1225416 Score: 612
Period size: 207 Copynumber: 2.4 Consensus size: 207
1224898 CGTTTTTTCA
* * * * *
1224908 ACAAATGCCGCAAAAGAGTAGTACTTTAGTGGCGTTTTAATACAAACGCCGCTAAAGACTCGTAA
1 ACAAATGCCGCTAAAGACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTAC
* * *
1224973 TTTAGTGGCATTTTTATACAAACGCCGCTATAGAATTGTACTTTAGTGGCGTTTTTATACAAACG
66 TTTAGTGGCATTTTTATACAAACGCCGCTATACAATTGTACTATAGTGGCATTTTTATACAAACG
* * *
1225038 CCGTTATACACATGTACTATAGTGGCGTTTGTGTTTACAAACGCCGCTAAAGACTCATAATTTAG
131 CCGTTAAACACATGTAATATAGTGGCATTTGTGTTTACAAACGCCGCTAAAGACTCATAATTTAG
* *
1225103 TGGCGTTTTTAT
196 TGACATTTTTAT
* * * * *
1225115 ACAAATGCCGCTAAAAACTCATACTTTAGTGGCATTTTTATACAAACTCCGCTAAAGACGCGTAC
1 ACAAATGCCGCTAAAGACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTAC
* * * *
1225180 TTTAGTGGCATTTTTATTCAAACGCCGTTATACACTTGTACTATAGTGGCATTTGTGTTTACAAA
66 TTTAGTGGCATTTTTATACAAACGCCGCTATACAATTGTACTATAGTGGCATTT-T-TATACAAA
* * * * *
1225245 CGTCGTTAAAGAC-TCGTAATTTAGTGGCATTT-T-TATT-CAAACGCCGCTAAAGACTCGTACT
129 CGCCGTTAAACACAT-GTAATATAGTGGCATTTGTGT-TTACAAACGCCGCTAAAGACTCATAAT
*
1225306 TTATTGACATTTTTAT
192 TTAGTGACATTTTTAT
* * * * *
1225322 ACAAACGCCGCTAAAGACTCGTACTTTAGTGGCGTTTTTATTCAAACGCCGCTATACACTTGTAC
1 ACAAATGCCGCTAAAGACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTAC
* * *
1225387 TATAGTGGCGTTTGTGTTTACAAACGCCGC
66 TTTAGTGGCATTT-T-TATACAAACGCCGC
1225417 AAGTTTACAA
Statistics
Matches: 253, Mismatches: 43, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
207 205 0.81
208 6 0.02
209 42 0.17
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.34
Consensus pattern (207 bp):
ACAAATGCCGCTAAAGACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTAC
TTTAGTGGCATTTTTATACAAACGCCGCTATACAATTGTACTATAGTGGCATTTTTATACAAACG
CCGTTAAACACATGTAATATAGTGGCATTTGTGTTTACAAACGCCGCTAAAGACTCATAATTTAG
TGACATTTTTAT
Found at i:1228368 original size:43 final size:43
Alignment explanation
Indices: 1228306--1228676 Score: 285
Period size: 43 Copynumber: 8.7 Consensus size: 43
1228296 AAGGTAATTA
* ** * *
1228306 GCGGCGTTTGTATAAAAAAACGCCGCTATAGGTCTGACTTTTT
1 GCGGCGTTTGTGTTCAAAAACGCCGCTATAGATCTGACCTTTT
** *
1228349 GCGGCGTTTGTGTTCAAAAACGCCATTATAGGTCTGACCTTTT
1 GCGGCGTTTGTGTTCAAAAACGCCGCTATAGATCTGACCTTTT
* * ** *
1228392 ACGGTGTTTGTGCCCAAAAACGCCGCTATAGGTCTGACCTTTT
1 GCGGCGTTTGTGTTCAAAAACGCCGCTATAGATCTGACCTTTT
* * *
1228435 GCGGTG-TT-TGTTCTAAAAACGCCAG-TATAGGTCT-TCTCTTTT
1 GCGGCGTTTGTGTTC-AAAAACGCC-GCTATAGATCTGAC-CTTTT
* * * * * *
1228477 GTGGTGTTTGTATCCAAAAACACCGCTATAGATCTGTCCTTTT
1 GCGGCGTTTGTGTTCAAAAACGCCGCTATAGATCTGACCTTTT
* * * *
1228520 GCGGCGTTT-T-TTCTAGAAACGCCGCTATATATCATAACTTTTT
1 GCGGCGTTTGTGTTC-AAAAACGCCGCTATAGATC-TGACCTTTT
* * *
1228563 GCGGCGTTTAT-TCCAAAAACGCCGCTATAGATATCGACCTTTT
1 GCGGCGTTTGTGTTCAAAAACGCCGCTATAGATCT-GACCTTTT
* *
1228606 GCGGCG-TT-TGTTCAAAAAACGCCG-TAATAGATATTGACCTATT
1 GCGGCGTTTGTGTTC-AAAAACGCCGCT-ATAGAT-CTGACCTTTT
* **
1228649 GCGGCGTTTTTGTTCTCAAACGCCGCTA
1 GCGGCGTTTGTGTTCAAAAACGCCGCTA
1228677 ACTTTAGCGG
Statistics
Matches: 269, Mismatches: 41, Indels: 35
0.78 0.12 0.10
Matches are distributed among these distances:
41 7 0.03
42 54 0.20
43 182 0.68
44 20 0.07
45 6 0.02
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (43 bp):
GCGGCGTTTGTGTTCAAAAACGCCGCTATAGATCTGACCTTTT
Found at i:1228494 original size:85 final size:86
Alignment explanation
Indices: 1228306--1228628 Score: 343
Period size: 85 Copynumber: 3.8 Consensus size: 86
1228296 AAGGTAATTA
* ** * *
1228306 GCGGCGTTTGTATAAAAAAACGCCGCTATAGGTCTGACTTTTTGCGGCGTTTGTGT-TCAAAAAC
1 GCGGTGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGT-TCT-AAAAAC
* *
1228370 GCCATTATAGGTCTGAC-CTTTT
64 GCCAGTATAGGTCTAACTCTTTT
* ** * *
1228392 ACGGTGTTTGTGCCCAAAAACGCCGCTATAGGTCTGACCTTTTGCGGTGTTTGTTCTAAAAACGC
1 GCGGTGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTTCTAAAAACGC
*
1228457 CAGTATAGGTCT-TCTCTTTT
66 CAGTATAGGTCTAACTCTTTT
* * * * *
1228477 GTGGTGTTTGTATCCAAAAACACCGCTATAGATCTGTCCTTTTGCGGCGTTTTTTCTAGAAACGC
1 GCGGTGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTTCTAAAAACGC
**
1228542 C-GCTATATATCATAACT-TTTT
66 CAG-TATAGGTC-TAACTCTTTT
* * * *
1228563 GCGGCGTTTAT-TCCAAAAACGCCGCTATAGATATCGACCTTTTGCGGCGTTTGTTCAAAAAACG
1 GCGGTGTTTGTATCCAAAAACGCCGCTATAGATCT-GACCTTTTGCGGCGTTTGTTCTAAAAACG
1228627 CC
65 CC
1228629 GTAATAGATA
Statistics
Matches: 199, Mismatches: 32, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
84 2 0.01
85 108 0.54
86 87 0.44
87 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (86 bp):
GCGGTGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTTCTAAAAACGC
CAGTATAGGTCTAACTCTTTT
Found at i:1228592 original size:128 final size:128
Alignment explanation
Indices: 1228321--1228625 Score: 303
Period size: 128 Copynumber: 2.4 Consensus size: 128
1228311 GTTTGTATAA
* * * * *
1228321 AAAAACGCCGCTATAGGTCTGACTTTTTGCGGCGTTTGTGTTCAAAAACGCCATTATAGGTCTGA
1 AAAAACGCCGCTATAGGTCTGACTTTTTGCGGCGTTTGTATCCAAAAACACCACTATAGATCTGA
* * * * * *
1228386 CCTTTTACGGTGTTTGTGCCCAAAAACGCCGCTATAGGTCTGACCTTTTGCGGTGTTTGTTCT
66 CCTTTTACGGCGTTTGTGCCCAAAAACGCCGCTATAGATCTAACCTTTTGCGGCGTTTATTCC
* * * *
1228449 AAAAACGCCAG-TATAGGTCT-TCTCTTTTGTGGTGTTTGTATCCAAAAACACCGCTATAGATCT
1 AAAAACGCC-GCTATAGGTCTGACT-TTTTGCGGCGTTTGTATCCAAAAACACCACTATAGATCT
* * ** * * * *
1228512 GTCCTTTTGCGGCGTTT-TTTCTAGAAACGCCGCTATATATCATAACTTTTTGCGGCGTTTATTC
64 GACCTTTTACGGCGTTTGTGCCCAAAAACGCCGCTATAGATC-TAACCTTTTGCGGCGTTTATTC
1228576 C
128 C
* * * *
1228577 AAAAACGCCGCTATAGATATCGACCTTTTGCGGCGTTTGT-TCAAAAAAC
1 AAAAACGCCGCTATAGGTCT-GACTTTTTGCGGCGTTTGTATCCAAAAAC
1228626 GCCGTAATAG
Statistics
Matches: 141, Mismatches: 30, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
127 21 0.15
128 105 0.74
129 14 0.10
130 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.34
Consensus pattern (128 bp):
AAAAACGCCGCTATAGGTCTGACTTTTTGCGGCGTTTGTATCCAAAAACACCACTATAGATCTGA
CCTTTTACGGCGTTTGTGCCCAAAAACGCCGCTATAGATCTAACCTTTTGCGGCGTTTATTCC
Found at i:1228636 original size:128 final size:125
Alignment explanation
Indices: 1228321--1228676 Score: 299
Period size: 128 Copynumber: 2.8 Consensus size: 125
1228311 GTTTGTATAA
* * * *
1228321 AAAAACGCCGCTATAGGTCT-GACTTTTTGCGGCGTTTGTGTTCAAAAACGCCATTATAGGTCTG
1 AAAAACGCCGCTATAGGTATCGACCTTTTGCGGCG-TT-TGTTCAAAAACGCC-GTATAGATCTG
* * ** * * * * * *
1228385 ACCTTTTACGGTGTTTGTGCCCAAAAACGCCGCTATAGGTCTGACCTTTTGCGGTGTTTGTTCT
63 ACCTTTTGCGGCGTTT-TTTCTAAAAACGCCGCTATAGATCTAACCTTTTGCGGCGTTTATTCC
* * * * *
1228449 AAAAACGCCAG-TATAGGTCTTC--TCTTTTGTGGTGTTTGTATCCAAAAACACCGCTATAGATC
1 AAAAACGCC-GCTATAGGT-ATCGACCTTTTGCGGCGTTTGT-T-CAAAAACGCCG-TATAGATC
* * * *
1228511 TGTCCTTTTGCGGCGTTTTTTCTAGAAACGCCGCTATATATCATAACTTTTTGCGGCGTTTATTC
61 TGACCTTTTGCGGCGTTTTTTCTAAAAACGCCGCTATAGATC-TAACCTTTTGCGGCGTTTATTC
1228576 C
125 C
* *
1228577 AAAAACGCCGCTATAGATATCGACCTTTTGCGGCGTTTGTTCAAAAAACGCCGTAATAGATATTG
1 AAAAACGCCGCTATAGGTATCGACCTTTTGCGGCGTTTGTTC-AAAAACGCCGT-ATAGAT-CTG
* *
1228642 ACCTATTGCGGCGTTTTTGTTCT-CAAACGCCGCTA
63 ACCTTTTGCGGCG-TTTT-TTCTAAAAACGCCGCTA
1228677 ACTTTAGCGG
Statistics
Matches: 181, Mismatches: 32, Indels: 28
0.75 0.13 0.12
Matches are distributed among these distances:
126 3 0.02
127 26 0.14
128 104 0.57
129 29 0.16
130 15 0.08
131 4 0.02
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (125 bp):
AAAAACGCCGCTATAGGTATCGACCTTTTGCGGCGTTTGTTCAAAAACGCCGTATAGATCTGACC
TTTTGCGGCGTTTTTTCTAAAAACGCCGCTATAGATCTAACCTTTTGCGGCGTTTATTCC
Found at i:1230126 original size:32 final size:32
Alignment explanation
Indices: 1230090--1230154 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
1230080 CAAGTTAGTA
*
1230090 TTGCATTCA-ATTAAAGCACAATAGAGTCAATG
1 TTGCATTCAGA-TAAAGAACAATAGAGTCAATG
* *
1230122 TTGCATTCAGATAATGAACAATAGTGTCAATG
1 TTGCATTCAGATAAAGAACAATAGAGTCAATG
1230154 T
1 T
1230155 CGTATTTAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 28 0.97
33 1 0.03
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (32 bp):
TTGCATTCAGATAAAGAACAATAGAGTCAATG
Found at i:1231420 original size:77 final size:79
Alignment explanation
Indices: 1231332--1231480 Score: 189
Period size: 77 Copynumber: 1.9 Consensus size: 79
1231322 TTCATAAATT
***
1231332 TCTTATTTAATTAATT-CAAATTAAATAT-ACATT-AAAGACTTATAATTTGAATTACAATC-TT
1 TCTTATTTAATT-ATTCCAAATTAAATATCA-ATTAAAAGACTTATAATCAAAATTACAATCTTT
1231393 TAATGTTTATTTAAAA
64 TAATGTTTATTTAAAA
* * * *
1231409 TCTTATTTAATTATTCCGAATTAAATATCAATTAAAAGAGTTGTAATCAAAATTACATTCTTTTA
1 TCTTATTTAATTATTCCAAATTAAATATCAATTAAAAGACTTATAATCAAAATTACAATCTTTTA
1231474 ATGTTTA
66 ATGTTTA
1231481 CTTACTATAT
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
76 3 0.05
77 26 0.43
78 21 0.34
79 11 0.18
ACGTcount: A:0.41, C:0.09, G:0.05, T:0.45
Consensus pattern (79 bp):
TCTTATTTAATTATTCCAAATTAAATATCAATTAAAAGACTTATAATCAAAATTACAATCTTTTA
ATGTTTATTTAAAA
Found at i:1232517 original size:16 final size:16
Alignment explanation
Indices: 1232498--1232534 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
1232488 TCTACAAGAA
*
1232498 CATGCTTCTAACTGAT
1 CATGCTTCTAACTAAT
1232514 CATGCTTCTAACTAAT
1 CATGCTTCTAACTAAT
1232530 CATGC
1 CATGC
1232535 AATAAATCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.27, C:0.27, G:0.11, T:0.35
Consensus pattern (16 bp):
CATGCTTCTAACTAAT
Found at i:1235631 original size:18 final size:17
Alignment explanation
Indices: 1235608--1235644 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
1235598 TATATCAAAA
1235608 ATATCAACATCAATAATT
1 ATATCAACATCAA-AATT
*
1235626 ATATCAAGATCAAAATT
1 ATATCAACATCAAAATT
1235643 AT
1 AT
1235645 TTATTTATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.51, C:0.14, G:0.03, T:0.32
Consensus pattern (17 bp):
ATATCAACATCAAAATT
Found at i:1236328 original size:29 final size:29
Alignment explanation
Indices: 1236296--1236397 Score: 177
Period size: 29 Copynumber: 3.5 Consensus size: 29
1236286 AACTTCATAT
* *
1236296 AACTTTCAATTTGGTCCCTAAAGATTACA
1 AACTTCCAAATTGGTCCCTAAAGATTACA
1236325 AACTTCCAAATTGGTCCCTAAAGATTACA
1 AACTTCCAAATTGGTCCCTAAAGATTACA
*
1236354 AACTTCCAAATTGATCCCTAAAGATTACA
1 AACTTCCAAATTGGTCCCTAAAGATTACA
1236383 AACTTCCAAATTGGT
1 AACTTCCAAATTGGT
1236398 TCAAACAACT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 69 1.00
ACGTcount: A:0.37, C:0.23, G:0.10, T:0.30
Consensus pattern (29 bp):
AACTTCCAAATTGGTCCCTAAAGATTACA
Found at i:1237670 original size:2 final size:2
Alignment explanation
Indices: 1237663--1237689 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1237653 CGAATTTGAT
1237663 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 T
1237690 TAAATATCAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1242408 original size:60 final size:60
Alignment explanation
Indices: 1242337--1242459 Score: 158
Period size: 60 Copynumber: 2.0 Consensus size: 60
1242327 TGGGCCTAAT
* *
1242337 GGTAAGACCTTATGGACCAT-AAGGCACTCCCTTAGGGTGGCTCATTTACTTTGTGCATTG
1 GGTAAGACCTTATGGACC-TGAAGGCACTCCCCTAGGGTGGCTCATTTACTGTGTGCATTG
* ** ** *
1242397 GGTAAGTCCTTATGGACCTGGGGGCACTCCCCTCTGGTGGCTCATTTGCTGTGTGCATTG
1 GGTAAGACCTTATGGACCTGAAGGCACTCCCCTAGGGTGGCTCATTTACTGTGTGCATTG
1242457 GGT
1 GGT
1242460 CCTTATGAAC
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
59 1 0.02
60 53 0.98
ACGTcount: A:0.16, C:0.23, G:0.29, T:0.32
Consensus pattern (60 bp):
GGTAAGACCTTATGGACCTGAAGGCACTCCCCTAGGGTGGCTCATTTACTGTGTGCATTG
Found at i:1242492 original size:56 final size:58
Alignment explanation
Indices: 1242359--1242495 Score: 172
Period size: 56 Copynumber: 2.4 Consensus size: 58
1242349 TGGACCATAA
* * * *
1242359 GGCACT-CCCTTAGGGTGGCTCATTTACTTTGTGCATTGGGTAAGTCCTTATGGACCTGGG
1 GGCACTCCCCTCA-GGTGGCTCATTTACTGTGTGCATTGGG--AGTCCTTATGAACATGGG
* *
1242419 GGCACTCCCCTCTGGTGGCTCATTTGCTGTGTGCATT-GG-GTCCTTATGAACATGGG
1 GGCACTCCCCTCAGGTGGCTCATTTACTGTGTGCATTGGGAGTCCTTATGAACATGGG
1242475 GGCACTCCCCTCAGGTGGCTC
1 GGCACTCCCCTCAGGTGGCTC
1242496 CTACGCTTCG
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
56 35 0.51
59 2 0.03
60 28 0.41
61 4 0.06
ACGTcount: A:0.13, C:0.26, G:0.30, T:0.31
Consensus pattern (58 bp):
GGCACTCCCCTCAGGTGGCTCATTTACTGTGTGCATTGGGAGTCCTTATGAACATGGG
Found at i:1245204 original size:19 final size:20
Alignment explanation
Indices: 1245158--1245196 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
1245148 TTGTAAACCC
*
1245158 ATAAAATATTGTTTATATAA
1 ATAAAATATTGTTAATATAA
1245178 ATAAAATATT-TTAATATAA
1 ATAAAATATTGTTAATATAA
1245197 TAATAATAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (20 bp):
ATAAAATATTGTTAATATAA
Done.