Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008342.1 Hibiscus syriacus cultivar Beakdansim tig00111069_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: 1228932
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 6
Found at i:1027396 original size:13 final size:12
Alignment explanation
Indices: 1027396--1027430 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
1027386 TCGTTGACCC
1027396 GACCCGACCCGTT
1 GACCCGA-CCGTT
1027409 GACCCGAACCGTT
1 GACCCG-ACCGTT
1027422 GACCCGACC
1 GACCCGACC
1027431 TGATTGTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 3 0.14
13 17 0.81
14 1 0.05
ACGTcount: A:0.20, C:0.46, G:0.23, T:0.11
Consensus pattern (12 bp):
GACCCGACCGTT
Found at i:1027430 original size:18 final size:18
Alignment explanation
Indices: 1027377--1027415 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
1027367 TGACCGGTCA
1027377 CGACCCGACTCGTTGACC
1 CGACCCGACTCGTTGACC
*
1027395 CGACCCGACCCGTTGACC
1 CGACCCGACTCGTTGACC
1027413 CGA
1 CGA
1027416 ACCGTTGACC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.18, C:0.46, G:0.23, T:0.13
Consensus pattern (18 bp):
CGACCCGACTCGTTGACC
Found at i:1027487 original size:20 final size:20
Alignment explanation
Indices: 1027462--1027502 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
1027452 TGCTATTCTG
1027462 GTAAATAATTCGGTTTTGGT
1 GTAAATAATTCGGTTTTGGT
1027482 GTAAATAATTCGGTTTTGGT
1 GTAAATAATTCGGTTTTGGT
1027502 G
1 G
1027503 CTATTCTAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.05, G:0.27, T:0.44
Consensus pattern (20 bp):
GTAAATAATTCGGTTTTGGT
Found at i:1029953 original size:36 final size:36
Alignment explanation
Indices: 1029912--1029985 Score: 103
Period size: 36 Copynumber: 2.1 Consensus size: 36
1029902 ACATGTTGAT
*
1029912 TTAATTTTGAGGGGATGACATGGTTTAATTTAAATA
1 TTAATTTTGAGGGGATGACATAGTTTAATTTAAATA
* * * *
1029948 TTAATTTTTAGGTGATGATATATTTTAATTTAAATA
1 TTAATTTTGAGGGGATGACATAGTTTAATTTAAATA
1029984 TT
1 TT
1029986 TTTTATGGAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.34, C:0.01, G:0.16, T:0.49
Consensus pattern (36 bp):
TTAATTTTGAGGGGATGACATAGTTTAATTTAAATA
Found at i:1037100 original size:2 final size:2
Alignment explanation
Indices: 1037093--1037138 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
1037083 ATTTGGTTTG
1037093 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
1037135 AT AT
1 AT AT
1037139 TAGATAAAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1047632 original size:34 final size:34
Alignment explanation
Indices: 1047589--1047664 Score: 143
Period size: 34 Copynumber: 2.2 Consensus size: 34
1047579 GTCGAGCTTC
1047589 AACTCATGTATCGGTTAGAAATATGATTAGAACA
1 AACTCATGTATCGGTTAGAAATATGATTAGAACA
*
1047623 AACTCATGTATCGGTTAGAAATATGATTGGAACA
1 AACTCATGTATCGGTTAGAAATATGATTAGAACA
1047657 AACTCATG
1 AACTCATG
1047665 CACAGTGTTC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.29
Consensus pattern (34 bp):
AACTCATGTATCGGTTAGAAATATGATTAGAACA
Found at i:1048733 original size:15 final size:15
Alignment explanation
Indices: 1048713--1048742 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1048703 AAATTTTTAG
1048713 ATCAGAACCCGAGTC
1 ATCAGAACCCGAGTC
1048728 ATCAGAACCCGAGTC
1 ATCAGAACCCGAGTC
1048743 TACTCCAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.33, G:0.20, T:0.13
Consensus pattern (15 bp):
ATCAGAACCCGAGTC
Found at i:1057914 original size:12 final size:13
Alignment explanation
Indices: 1057897--1057926 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1057887 TTTTTTAAAA
1057897 TAAAATAT-TATT
1 TAAAATATATATT
1057909 TAAAATATATATT
1 TAAAATATATATT
1057922 TAAAA
1 TAAAA
1057927 AAATCTGAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.47
13 9 0.53
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
TAAAATATATATT
Found at i:1065060 original size:30 final size:29
Alignment explanation
Indices: 1065026--1065099 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 29
1065016 AACTTAACGC
*
1065026 TTTTAGTATTTAAACCATCACTTTAGTCCG
1 TTTTAGTATCTAAACCATC-CTTTAGTCCG
* ** * *
1065056 TTTTAATATCTAAACTTTCGTTTGGTCCG
1 TTTTAGTATCTAAACCATCCTTTAGTCCG
*
1065085 TTTTAGTACCTAAAC
1 TTTTAGTATCTAAAC
1065100 TTTCATTCTT
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
29 21 0.58
30 15 0.42
ACGTcount: A:0.26, C:0.19, G:0.11, T:0.45
Consensus pattern (29 bp):
TTTTAGTATCTAAACCATCCTTTAGTCCG
Found at i:1065213 original size:39 final size:39
Alignment explanation
Indices: 1065139--1065213 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
1065129 CTTTGAACGA
* **
1065139 GTACTAAAATGAAATAACAACTAAAATTTTTTATGACAT
1 GTACTAAAATGAAATAACAAATAAAATTTAATATGACAT
*
1065178 GTACTAAAATGAAATAA-AAATTAAATTTAAATATGA
1 GTACTAAAATGAAATAACAAATAAAATTT-AATATGA
1065214 TGTTGAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 9 0.29
39 22 0.71
ACGTcount: A:0.53, C:0.07, G:0.08, T:0.32
Consensus pattern (39 bp):
GTACTAAAATGAAATAACAAATAAAATTTAATATGACAT
Found at i:1066378 original size:21 final size:22
Alignment explanation
Indices: 1066349--1066391 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
1066339 ATTCTGACTA
1066349 TCGCATTGCGATTTTCC-AAAT
1 TCGCATTGCGATTTTCCTAAAT
*
1066370 TCGCGTTGCGATTTTCCTAAAT
1 TCGCATTGCGATTTTCCTAAAT
1066392 CACAATACGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.21, C:0.23, G:0.16, T:0.40
Consensus pattern (22 bp):
TCGCATTGCGATTTTCCTAAAT
Found at i:1066463 original size:20 final size:20
Alignment explanation
Indices: 1066387--1066456 Score: 113
Period size: 20 Copynumber: 3.5 Consensus size: 20
1066377 GCGATTTTCC
* *
1066387 TAAATCACAATACGAATACG
1 TAAATCGCAATGCGAATACG
1066407 TAAATCGCAATGCGAATACG
1 TAAATCGCAATGCGAATACG
*
1066427 TAAATCGCAATGCGAATATG
1 TAAATCGCAATGCGAATACG
1066447 TAAATCGCAA
1 TAAATCGCAA
1066457 CGTGAATCTG
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.44, C:0.19, G:0.16, T:0.21
Consensus pattern (20 bp):
TAAATCGCAATGCGAATACG
Found at i:1066683 original size:22 final size:22
Alignment explanation
Indices: 1066658--1066723 Score: 96
Period size: 22 Copynumber: 3.0 Consensus size: 22
1066648 GGCGACATCC
1066658 ATCCCCATCTCCGACGAAATCA
1 ATCCCCATCTCCGACGAAATCA
*
1066680 ATCCCCATCTCCGACGATATCA
1 ATCCCCATCTCCGACGAAATCA
* * *
1066702 GTCTCCATCTCCGGCGAAATCA
1 ATCCCCATCTCCGACGAAATCA
1066724 TTCACGGTCA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.27, C:0.39, G:0.12, T:0.21
Consensus pattern (22 bp):
ATCCCCATCTCCGACGAAATCA
Found at i:1067190 original size:20 final size:19
Alignment explanation
Indices: 1067059--1067197 Score: 99
Period size: 20 Copynumber: 7.4 Consensus size: 19
1067049 GCGATTCTGT
**
1067059 CGTTGCGATTTTCATTTCG
1 CGTTGCGATAGTCATTTCG
* *
1067078 CGTTGCGATAGTCAAATTCA
1 CGTTGCGATAGTC-ATTTCG
1067098 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCA-TTTCG
* * **
1067118 TGTTACGATTTTCATTTCG
1 CGTTGCGATAGTCATTTCG
*
1067137 CATTGCGAT--TC--TT-G
1 CGTTGCGATAGTCATTTCG
*
1067151 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTC-ATTTCG
*
1067171 CGTTGCGATAATCATTTTCG
1 CGTTGCGATAGTCA-TTTCG
*
1067191 TGTTGCG
1 CGTTGCG
1067198 GTTTTCATTT
Statistics
Matches: 94, Mismatches: 17, Indels: 17
0.73 0.13 0.13
Matches are distributed among these distances:
14 9 0.10
15 2 0.02
16 2 0.02
17 2 0.02
19 26 0.28
20 53 0.56
ACGTcount: A:0.18, C:0.19, G:0.22, T:0.40
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:1067205 original size:20 final size:20
Alignment explanation
Indices: 1067167--1067222 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
1067157 GATAGTCAAA
* **
1067167 TTCGCGTTGCGATAATCATT
1 TTCGTGTTGCGATTTTCATT
*
1067187 TTCGTGTTGCGGTTTTCATT
1 TTCGTGTTGCGATTTTCATT
1067207 TTCGTGTTGCGATTTT
1 TTCGTGTTGCGATTTT
1067223 AAGTTTCAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.11, C:0.16, G:0.23, T:0.50
Consensus pattern (20 bp):
TTCGTGTTGCGATTTTCATT
Found at i:1067206 original size:93 final size:92
Alignment explanation
Indices: 1067042--1067222 Score: 220
Period size: 93 Copynumber: 2.0 Consensus size: 92
1067032 AGAATGACTA
** * *
1067042 TCGCAATGCGATTCTGTCGTTGCGATTTTCATTTCGCGTTGCGATAGTCAAATTCACGTTGCGAT
1 TCGCAATGCGATTCTGTCGTTGCGATAGTCAATTCGCGTTGCGATAATCAAATTCACGTTGCGAT
1067107 AGTCATTTTCGTGTTACGATTTTCATT
66 AGTCATTTTCGTGTTACGATTTTCATT
* ** **
1067134 TCGCATTGCGATTCT-TGCGTTGCGATAGTCAAATTCGCGTTGCGATAATCATTTTCGTGTTGCG
1 TCGCAATGCGATTCTGT-CGTTGCGATAGTC-AATTCGCGTTGCGATAATCAAATTCACGTTGCG
* ** *
1067198 GTTTTCATTTTCGTGTTGCGATTTT
64 ATAGTCATTTTCGTGTTACGATTTT
1067223 AAGTTTCAGA
Statistics
Matches: 74, Mismatches: 13, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
91 1 0.01
92 25 0.34
93 48 0.65
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.43
Consensus pattern (92 bp):
TCGCAATGCGATTCTGTCGTTGCGATAGTCAATTCGCGTTGCGATAATCAAATTCACGTTGCGAT
AGTCATTTTCGTGTTACGATTTTCATT
Found at i:1067229 original size:20 final size:20
Alignment explanation
Indices: 1067186--1067229 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
1067176 CGATAATCAT
* * *
1067186 TTTCGTGTTGCGGTTTTCAT
1 TTTCGTGTTGCGATTTTAAG
1067206 TTTCGTGTTGCGATTTTAAG
1 TTTCGTGTTGCGATTTTAAG
1067226 TTTC
1 TTTC
1067230 AGAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.09, C:0.14, G:0.23, T:0.55
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTAAG
Found at i:1069140 original size:20 final size:20
Alignment explanation
Indices: 1069111--1069267 Score: 108
Period size: 20 Copynumber: 8.5 Consensus size: 20
1069101 GAATTAGTTT
*
1069111 ACTATAGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
1069131 ACTATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
* *
1069151 ACTATCGTAA--CG-ACA-G
1 ACTATCGCAATGCGAAAATG
1069167 A--ATCGCAATGCG-AAATG
1 ACTATCGCAATGCGAAAATG
**
1069184 AAAATCGCAA--C-AACAA--
1 ACTATCGCAATGCGAA-AATG
*
1069200 A--ATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
1069218 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
* ** *
1069238 ACTATCGTAATGCGAATTTT
1 ACTATCGCAATGCGAAAATG
1069258 ACTATCGCAA
1 ACTATCGCAA
1069268 CGAAAGAATC
Statistics
Matches: 111, Mismatches: 12, Indels: 28
0.74 0.08 0.19
Matches are distributed among these distances:
14 13 0.12
16 10 0.09
17 8 0.07
18 5 0.05
19 7 0.06
20 68 0.61
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.19
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:1069180 original size:34 final size:34
Alignment explanation
Indices: 1069134--1069288 Score: 134
Period size: 34 Copynumber: 4.4 Consensus size: 34
1069124 GAAAATGACT
* * *
1069134 ATCGCAACGCGAAAATGACTATCGTAACGACAGA
1 ATCGCAATGCGAAAATGACTATCGCAACGAAAGA
** *
1069168 ATCGCAATGCG-AAATGAAAATCGCAAC-AACAAA
1 ATCGCAATGCGAAAATGACTATCGCAACGAA-AGA
*
1069201 ATCGCAACGCGAAAATGACTATCGCAATGCGAAAATGA
1 ATCGCAATGCGAAAATGACTATCGCAA--CG-AAA-GA
* ** *
1069239 CTATCGTAATGCGAATTTTACTATCGCAACGAAAGA
1 --ATCGCAATGCGAAAATGACTATCGCAACGAAAGA
1069275 ATCGCAATGCGAAA
1 ATCGCAATGCGAAA
1069289 TGAAAATCGC
Statistics
Matches: 95, Mismatches: 17, Indels: 18
0.73 0.13 0.14
Matches are distributed among these distances:
32 1 0.01
33 25 0.26
34 35 0.37
36 3 0.03
37 4 0.04
38 5 0.05
40 22 0.23
ACGTcount: A:0.43, C:0.21, G:0.19, T:0.17
Consensus pattern (34 bp):
ATCGCAATGCGAAAATGACTATCGCAACGAAAGA
Found at i:1069204 original size:33 final size:33
Alignment explanation
Indices: 1069134--1069214 Score: 99
Period size: 33 Copynumber: 2.4 Consensus size: 33
1069124 GAAAATGACT
** * * *
1069134 ATCGCAACGCGAAAATGACTATCGTAACGACAGA
1 ATCGCAACGCG-AAATGAAAATCGCAACAACAAA
*
1069168 ATCGCAATGCGAAATGAAAATCGCAACAACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACAACAAA
1069201 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
1069215 ATGACTATCG
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
33 30 0.75
34 10 0.25
ACGTcount: A:0.46, C:0.23, G:0.19, T:0.12
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACAACAAA
Found at i:1069337 original size:20 final size:20
Alignment explanation
Indices: 1069312--1069356 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
1069302 GCGATTCTCT
1069312 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
1069332 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
1069352 CGTTG
1 CGTTG
1069357 TGATTTTAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.13, C:0.20, G:0.27, T:0.40
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:1071553 original size:33 final size:33
Alignment explanation
Indices: 1071469--1071563 Score: 118
Period size: 33 Copynumber: 2.8 Consensus size: 33
1071459 AACGAATTCG
*
1071469 CGTTGCGATTTTCATTTTCACATTGCGATTCTCT
1 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
* * *
1071503 CGTTACGATTTTTATTTCGCATTGTGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
** *
1071536 CGTTGCGATAGTCATTTCGCGTTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
1071564 AGTCATTTCC
Statistics
Matches: 51, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
33 39 0.76
34 12 0.24
ACGTcount: A:0.15, C:0.21, G:0.19, T:0.45
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:1071578 original size:20 final size:20
Alignment explanation
Indices: 1071536--1071627 Score: 145
Period size: 19 Copynumber: 4.7 Consensus size: 20
1071526 GTGATTCTCT
1071536 CGTTGCGATAGTCAT-TTCG
1 CGTTGCGATAGTCATATTCG
1071555 CGTTGCGATAGTCAT-TTCCG
1 CGTTGCGATAGTCATATT-CG
1071575 CGTTGCGATAGTCATATTC-
1 CGTTGCGATAGTCATATTCG
*
1071594 CGTTGCGATAGTCATATTTG
1 CGTTGCGATAGTCATATTCG
1071614 CGTTGCGATAGTCA
1 CGTTGCGATAGTCA
1071628 AATGAATGTC
Statistics
Matches: 69, Mismatches: 1, Indels: 5
0.92 0.01 0.07
Matches are distributed among these distances:
19 35 0.51
20 32 0.46
21 2 0.03
ACGTcount: A:0.18, C:0.21, G:0.25, T:0.36
Consensus pattern (20 bp):
CGTTGCGATAGTCATATTCG
Found at i:1071598 original size:39 final size:39
Alignment explanation
Indices: 1071536--1071627 Score: 143
Period size: 39 Copynumber: 2.4 Consensus size: 39
1071526 GTGATTCTCT
1071536 CGTTGCGATAGTCATTTCGCGTTGCGATAGTCAT-TTCCG
1 CGTTGCGATAGTCATTTCGCGTTGCGATAGTCATATT-CG
*
1071575 CGTTGCGATAGTCATATTC-CGTTGCGATAGTCATATTTG
1 CGTTGCGATAGTCAT-TTCGCGTTGCGATAGTCATATTCG
1071614 CGTTGCGATAGTCA
1 CGTTGCGATAGTCA
1071628 AATGAATGTC
Statistics
Matches: 50, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
39 45 0.90
40 5 0.10
ACGTcount: A:0.18, C:0.21, G:0.25, T:0.36
Consensus pattern (39 bp):
CGTTGCGATAGTCATTTCGCGTTGCGATAGTCATATTCG
Found at i:1074913 original size:20 final size:20
Alignment explanation
Indices: 1074888--1075015 Score: 148
Period size: 20 Copynumber: 6.4 Consensus size: 20
1074878 AAAATTCAGT
* *
1074888 ATTGCGATAGTAAGAATCAC
1 ATTGCGATAGTCAGAATCGC
*
1074908 ATTGCGATAGTCAAAATCGC
1 ATTGCGATAGTCAGAATCGC
* *
1074928 GTTGCGATAGTCAGAATCTC
1 ATTGCGATAGTCAGAATCGC
* *
1074948 GTTGCGATAGTCAGAATCTC
1 ATTGCGATAGTCAGAATCGC
* * *
1074968 GTTGTGATAGTCATAATCGC
1 ATTGCGATAGTCAGAATCGC
*
1074988 ATTGCGATAGTCAGATTCGC
1 ATTGCGATAGTCAGAATCGC
*
1075008 GTTGCGAT
1 ATTGCGAT
1075016 TTACGTATTC
Statistics
Matches: 94, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 94 1.00
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (20 bp):
ATTGCGATAGTCAGAATCGC
Found at i:1074935 original size:40 final size:40
Alignment explanation
Indices: 1074889--1075015 Score: 173
Period size: 40 Copynumber: 3.2 Consensus size: 40
1074879 AAATTCAGTA
* *
1074889 TTGCGATAGTAAGAATCACATTGCGATAGTCAAAATCGCG
1 TTGCGATAGTCAGAATCACATTGCGATAGTCAGAATCGCG
* * *
1074929 TTGCGATAGTCAGAATCTCGTTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCACATTGCGATAGTCAGAATCGCG
* * * *
1074969 TTGTGATAGTCATAATCGCATTGCGATAGTCAGATTCGCG
1 TTGCGATAGTCAGAATCACATTGCGATAGTCAGAATCGCG
1075009 TTGCGAT
1 TTGCGAT
1075016 TTACGTATTC
Statistics
Matches: 75, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 75 1.00
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (40 bp):
TTGCGATAGTCAGAATCACATTGCGATAGTCAGAATCGCG
Found at i:1074977 original size:60 final size:60
Alignment explanation
Indices: 1074889--1075015 Score: 182
Period size: 60 Copynumber: 2.1 Consensus size: 60
1074879 AAATTCAGTA
* *
1074889 TTGCGATAGTAAGAATCACATTGCGATAGTCAAAATCGCGTTGCGATAGTCAGAATCTCG
1 TTGCGATAGTAAGAATCACATTGCGATAGTCAAAATCGCATTGCGATAGTCAGAATCGCG
* * * * * *
1074949 TTGCGATAGTCAGAATCTCGTTGTGATAGTCATAATCGCATTGCGATAGTCAGATTCGCG
1 TTGCGATAGTAAGAATCACATTGCGATAGTCAAAATCGCATTGCGATAGTCAGAATCGCG
1075009 TTGCGAT
1 TTGCGAT
1075016 TTACGTATTC
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (60 bp):
TTGCGATAGTAAGAATCACATTGCGATAGTCAAAATCGCATTGCGATAGTCAGAATCGCG
Found at i:1075028 original size:40 final size:40
Alignment explanation
Indices: 1074907--1075034 Score: 136
Period size: 40 Copynumber: 3.2 Consensus size: 40
1074897 GTAAGAATCA
* *
1074907 CATTGCGATAGTCAAAATCGCGTTGCGATAGTCAGAATCTCG
1 CATTGCGATAGTCAGAATCGCGTTGCGATAGTC-GTAT-TCG
* * * *
1074949 --TTGCGATAGTCAGAATCTCGTTGTGATAGTCATAATCG
1 CATTGCGATAGTCAGAATCGCGTTGCGATAGTCGTATTCG
* *
1074987 CATTGCGATAGTCAGATTCGCGTTGCGAT-TTACGTATTCG
1 CATTGCGATAGTCAGAATCGCGTTGCGATAGT-CGTATTCG
1075027 CATTGCGA
1 CATTGCGA
1075035 ATTAGGAAAA
Statistics
Matches: 71, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
38 3 0.04
39 2 0.03
40 66 0.93
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (40 bp):
CATTGCGATAGTCAGAATCGCGTTGCGATAGTCGTATTCG
Found at i:1075054 original size:21 final size:21
Alignment explanation
Indices: 1075024--1075076 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
1075014 ATTTACGTAT
*
1075024 TCGCATTGCGAATTAGGAAAA
1 TCGCAATGCGAATTAGGAAAA
*
1075045 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTAGGAAAA
*
1075066 TCGTAATGCGA
1 TCGCAATGCGA
1075077 TAGTCAGAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.25
Consensus pattern (21 bp):
TCGCAATGCGAATTAGGAAAA
Found at i:1075643 original size:75 final size:74
Alignment explanation
Indices: 1075512--1075825 Score: 396
Period size: 75 Copynumber: 4.2 Consensus size: 74
1075502 CTTAACATGT
* * ** * * *
1075512 TAAAATAAAATAGGTC-CTACCTATTATGTTAAATTATTTACTGGTTTGCTTGAAGGTTACTTAT
1 TAAAATAAAATAGG-CACTACCTATTACGTTAAACTACCTACT-GTTTGTTTAAAGGTTACTAAT
* *
1075576 AATGTAAACGG
64 AATGTAAAAGA
** *
1075587 TAAAATAAAATAGGCGTTACCTATTACGTTAAAATACCTACTGATTTGTTTAAAGGTTACTAATA
1 TAAAATAAAATAGGCACTACCTATTACGTTAAACTACCTACTG-TTTGTTTAAAGGTTACTAATA
*
1075652 ATGTAAACGA
65 ATGTAAAAGA
*
1075662 TAAAATAAAATAGACACTACCTATTACGTTAAACTACCTACCTGTTTGTTTAAAGGTTACTAATA
1 TAAAATAAAATAGGCACTACCTATTACGTTAAACTACCTA-CTGTTTGTTTAAAGGTTACTAATA
1075727 ATGTAAAAGA
65 ATGTAAAAGA
* * * * *
1075737 TAAAATAAAATAGGCACTACTTATTACGTGAAACTAACTACTTGTTTGTTTAAAAGTTAATAATA
1 TAAAATAAAATAGGCACTACCTATTACGTTAAACTACCTAC-TGTTTGTTTAAAGGTTACTAATA
*
1075802 ATGTAAAAAA
65 ATGTAAAAGA
1075812 TAAAATAAAATAGG
1 TAAAATAAAATAGG
1075826 TGTTTCTATT
Statistics
Matches: 214, Mismatches: 21, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
74 3 0.01
75 208 0.97
76 3 0.01
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.34
Consensus pattern (74 bp):
TAAAATAAAATAGGCACTACCTATTACGTTAAACTACCTACTGTTTGTTTAAAGGTTACTAATAA
TGTAAAAGA
Found at i:1075888 original size:23 final size:23
Alignment explanation
Indices: 1075831--1075889 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 23
1075821 ATAGGTGTTT
** *
1075831 CTATTATGTTAAATATGTTCTAT
1 CTATTATGTTAAATAAATTCTAC
**
1075854 CTATTACATTAAATAAATAT-TAC
1 CTATTATGTTAAATAAAT-TCTAC
1075877 CTATTATGTTAAA
1 CTATTATGTTAAA
1075890 CTAACTACTG
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
23 27 0.96
24 1 0.04
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.46
Consensus pattern (23 bp):
CTATTATGTTAAATAAATTCTAC
Found at i:1076513 original size:105 final size:107
Alignment explanation
Indices: 1076381--1076623 Score: 265
Period size: 105 Copynumber: 2.3 Consensus size: 107
1076371 ATTTATAAAA
* ** * * * *
1076381 AATTAACATATTTTATCGTCGTGGGATTTCGAATGCCCCTTCAATTTAAACTTTGATAACATTAT
1 AATTAACATATTTTGTTATCGTCGGATTTCGAAGGCCCCATCAACTTAAACTTTGATAACATTAT
* * *
1076446 AGGCGCTATCT-A-TGTTGATAATATTAATAACAAAATAAGT
66 AGACGCTACCTAATTGTTGATAATATTAATAACAAAATAAGC
* * * ** * * * *
1076486 AATTAACCTATTTTTTTATTGTCGGATTTTTAAGGTCCCATCAGCTTAAACTTTGATAATATTTT
1 AATTAACATATTTTGTTATCGTCGGATTTCGAAGGCCCCATCAACTTAAACTTTGATAACATTAT
* *
1076551 AGACGCTACCTAATTTGTTGATAATATTGATAACAAATTAAGC
66 AGACGCTACCTAA-TTGTTGATAATATTAATAACAAAATAAGC
*
1076594 AATTAATATATTTTGTTATCGTCGGATTTC
1 AATTAACATATTTTGTTATCGTCGGATTTC
1076624 TTAAAGTCCC
Statistics
Matches: 110, Mismatches: 25, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
105 59 0.54
106 1 0.01
108 50 0.45
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.41
Consensus pattern (107 bp):
AATTAACATATTTTGTTATCGTCGGATTTCGAAGGCCCCATCAACTTAAACTTTGATAACATTAT
AGACGCTACCTAATTGTTGATAATATTAATAACAAAATAAGC
Found at i:1076598 original size:108 final size:106
Alignment explanation
Indices: 1076426--1076641 Score: 290
Period size: 108 Copynumber: 2.0 Consensus size: 106
1076416 CCCCTTCAAT
* * *
1076426 TTAAACTTTGATAACATTATAGGCGCTATCTATGTTGATAATATTAATAACAAAATAAGTAATTA
1 TTAAACTTTGATAACATTATAGACGCTACCTATGTTGATAATATTAATAACAAAATAAGCAATTA
* * * *
1076491 ACCTATTTTTTTATTGTCGGATTT-TTAAGGTCCCATCAGC
66 ACATATTTTGTTATCGTCGGATTTCTTAAAGTCCCATCAGC
* * * *
1076531 TTAAACTTTGATAATATTTTAGACGCTACCTAATTTGTTGATAATATTGATAACAAATTAAGCAA
1 TTAAACTTTGATAACATTATAGACGCTACCT-A--TGTTGATAATATTAATAACAAAATAAGCAA
*
1076596 TTAATATATTTTGTTATCGTCGGATTTCTTAAAGTCCCATCAGC
63 TTAACATATTTTGTTATCGTCGGATTTCTTAAAGTCCCATCAGC
1076640 TT
1 TT
1076642 TAAAAAGACG
Statistics
Matches: 95, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
105 27 0.28
106 1 0.01
108 50 0.53
109 17 0.18
ACGTcount: A:0.34, C:0.13, G:0.12, T:0.41
Consensus pattern (106 bp):
TTAAACTTTGATAACATTATAGACGCTACCTATGTTGATAATATTAATAACAAAATAAGCAATTA
ACATATTTTGTTATCGTCGGATTTCTTAAAGTCCCATCAGC
Found at i:1076942 original size:224 final size:226
Alignment explanation
Indices: 1076530--1076942 Score: 518
Period size: 224 Copynumber: 1.8 Consensus size: 226
1076520 GTCCCATCAG
* * * * * ** *
1076530 CTTAAACTTTGATAATATTTTAGACGCTACCTAATTTGTTGATAATATTGATAACAAATTAAGCA
1 CTTAAACTTTAATAACATTTTAGACGCTACCTAATATGTTAATAATATCGATAACAAACCAAACA
* *
1076595 ATTAATATATTTTGTTATCGTCGGATTTCTTAAAGTCCCATCAGCTTTAAAAAGACGCTACCTAT
66 ATTAATATATTTTGTTATCGTCGGA-TTCTTAAAGCCCCACCAGCTTTAAAAAGACGCTACCTAT
*
1076660 TACATTAAATAAGCACTACTTGTTATGTTATTATGGTTAATAATGTTTCCAGTAATTAACTGGTT
130 TACATTAAATAAGCACTACTTGTTATGTTATTATGATTAATAATGTTTCCAGTAATTAACTGGTT
1076725 GTGTTATCGTCGAATTTCTAAAACTCCATTAA
195 GTGTTATCGTCGAATTTCTAAAACTCCATTAA
*
1076757 CTTAAACTTTAATAACATTTTA-A-GCATTATCTAATATGTTAATAATATCGATAACAAACCAAA
1 CTTAAACTTTAATAACATTTTAGACGC--TACCTAATATGTTAATAATATCGATAACAAACCAAA
* * *
1076820 TAATTAACT-TATTTTGTTATCGTCGGA-T-TT-AAGACCCCGCCAGTTTTAAAAAGACGCTACC
64 CAATTAA-TATATTTTGTTATCGTCGGATTCTTAAAG-CCCCACCAGCTTTAAAAAGACGCTACC
* *** * *
1076881 TATTACGTTACAA-AAGTGTTA-TCTGTTATGTTATTATGATTGATAATGTTTCTAGTAATTAA
127 TATTACATTA-AATAAGCACTACT-TGTTATGTTATTATGATTAATAATGTTTCCAGTAATTAA
1076943 TTAGTTATGT
Statistics
Matches: 159, Mismatches: 21, Indels: 15
0.82 0.11 0.08
Matches are distributed among these distances:
223 4 0.03
224 75 0.47
225 5 0.03
226 1 0.01
227 73 0.46
228 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (226 bp):
CTTAAACTTTAATAACATTTTAGACGCTACCTAATATGTTAATAATATCGATAACAAACCAAACA
ATTAATATATTTTGTTATCGTCGGATTCTTAAAGCCCCACCAGCTTTAAAAAGACGCTACCTATT
ACATTAAATAAGCACTACTTGTTATGTTATTATGATTAATAATGTTTCCAGTAATTAACTGGTTG
TGTTATCGTCGAATTTCTAAAACTCCATTAA
Found at i:1078009 original size:4 final size:4
Alignment explanation
Indices: 1078000--1078047 Score: 73
Period size: 4 Copynumber: 12.5 Consensus size: 4
1077990 TGTATATGTT
*
1078000 TATG TATG TATG TATG TATG TATG TATG TA-- TATA TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1078046 TA
1 TA
1078048 GGCTAAACTC
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
2 2 0.05
4 39 0.95
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:1082210 original size:26 final size:24
Alignment explanation
Indices: 1082148--1082210 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 24
1082138 AATTTTAATC
1082148 AAAATAT-TAATTATTAAAATATTT
1 AAAATATAT-ATTATTAAAATATTT
*
1082172 AAAATATAT-TTATTAATAT-TTCT
1 AAAATATATATTATTAAAATATT-T
1082195 AATAATATAATATTAT
1 AA-AATAT-ATATTAT
1082211 ATTTTTAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
22 2 0.06
23 12 0.36
24 12 0.36
25 3 0.09
26 4 0.12
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (24 bp):
AAAATATATATTATTAAAATATTT
Found at i:1082236 original size:31 final size:32
Alignment explanation
Indices: 1082174--1082256 Score: 82
Period size: 32 Copynumber: 2.6 Consensus size: 32
1082164 AAATATTTAA
1082174 AATATATTTATTAATATTTCTAATAATATAA-T
1 AATATATTT-TTAATATTTCTAATAATATAATT
* *
1082206 ATTATATTTTTAATATTACTTTAA-AA-ATAATT
1 AATATATTTTTAATATT--TCTAATAATATAATT
*
1082238 AATATAATTTATAATATTT
1 AATAT-ATTTTTAATATTT
1082257 TATTTCAATA
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
31 13 0.30
32 15 0.35
33 15 0.35
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (32 bp):
AATATATTTTTAATATTTCTAATAATATAATT
Found at i:1082325 original size:15 final size:15
Alignment explanation
Indices: 1082281--1082339 Score: 57
Period size: 15 Copynumber: 3.9 Consensus size: 15
1082271 ATACCAATAT
*
1082281 TAATATTTT-ATTAA
1 TAATATTTTAATAAA
* * *
1082295 TAAAATTATAAAAAA
1 TAATATTTTAATAAA
1082310 TAATATTTTAATAAA
1 TAATATTTTAATAAA
1082325 TAAATTATTTTAATA
1 T-AA-TATTTTAATA
1082340 TTTAAAAATA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
14 7 0.20
15 16 0.46
16 2 0.06
17 10 0.29
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
TAATATTTTAATAAA
Found at i:1082721 original size:21 final size:20
Alignment explanation
Indices: 1082695--1082792 Score: 74
Period size: 21 Copynumber: 4.8 Consensus size: 20
1082685 ATCAGTTTCC
1082695 AAAATCGCAACGCGATTCTTG
1 AAAATCGCAACGCGATT-TTG
* **
1082716 AAAATCGCAATGCGATAGT-
1 AAAATCGCAACGCGATTTTG
**
1082735 ACAAATTCGCATTGCGATTTT-
1 A-AAA-TCGCAACGCGATTTTG
* *
1082756 ACAGAATCGCAACGCGAATATG
1 A-A-AATCGCAACGCGATTTTG
1082778 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
1082793 ACACATAAAT
Statistics
Matches: 63, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
19 1 0.02
20 17 0.27
21 42 0.67
22 3 0.05
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.21
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTTG
Found at i:1082785 original size:20 final size:20
Alignment explanation
Indices: 1082760--1082953 Score: 214
Period size: 20 Copynumber: 9.7 Consensus size: 20
1082750 GATTTTACAG
** *
1082760 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAATCCGTA
*
1082780 AATCGCAACGCGAA-CACATA
1 AATCGCAACGCGAATC-CGTA
*
1082800 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATCCGTA
*
1082820 AATCGCAACGCGAA-CACATA
1 AATCGCAACGCGAATC-CGTA
*
1082840 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATCCGTA
* *
1082860 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGAATCCGTA
* *
1082880 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATCCGTA
*
1082900 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGAATCCGT-A
*
1082921 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATCCGTA
1082941 AATCGCAACGCGA
1 AATCGCAACGCGA
1082954 TTTTTAAAGC
Statistics
Matches: 148, Mismatches: 19, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
19 1 0.01
20 128 0.86
21 19 0.13
ACGTcount: A:0.37, C:0.28, G:0.19, T:0.17
Consensus pattern (20 bp):
AATCGCAACGCGAATCCGTA
Found at i:1082807 original size:40 final size:40
Alignment explanation
Indices: 1082760--1082953 Score: 257
Period size: 40 Copynumber: 4.8 Consensus size: 40
1082750 GATTTTACAG
* ** *
1082760 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAACACATA
1082800 AATCGCAACGCGTATCCGTAAATCGCAACGCGAACACATA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAACACATA
* * *
1082840 AATCGCAACGCGTATCCGTAAATCGCAATGCGTATC-CGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCG-AACACATA
* * *
1082880 TATCGCAACGCGTATCCGTAAATCGCAACGAC-AATACGTAA
1 AATCGCAACGCGTATCCGTAAATCGCAACG-CGAACACAT-A
1082921 AATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGA
1082954 TTTTTAAAGC
Statistics
Matches: 137, Mismatches: 12, Indels: 9
0.87 0.08 0.06
Matches are distributed among these distances:
39 1 0.01
40 102 0.74
41 34 0.25
ACGTcount: A:0.37, C:0.28, G:0.19, T:0.17
Consensus pattern (40 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAACACATA
Found at i:1083369 original size:32 final size:33
Alignment explanation
Indices: 1083331--1083400 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
1083321 TTCACTTAGA
*
1083331 TTTCATTTCGCGTTACGA-TCTCTTGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
1083363 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1083396 TTTCA
1 TTTCA
1083401 AGTTAGTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 16 0.47
33 18 0.53
ACGTcount: A:0.11, C:0.23, G:0.17, T:0.49
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:1083506 original size:21 final size:20
Alignment explanation
Indices: 1083480--1083553 Score: 94
Period size: 21 Copynumber: 3.5 Consensus size: 20
1083470 TGCAGAAGAG
1083480 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
* **
1083501 TCGCAACGTGAAAATGACTA
1 TCGCAACGAGAAAATGAAAA
1083521 TCTGCAACGAGAAAAATGAAAA
1 TC-GCAACGAG-AAAATGAAAA
1083543 TCGCAACGAGA
1 TCGCAACGAGA
1083554 GAATCGCAAC
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
20 10 0.22
21 25 0.56
22 10 0.22
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (20 bp):
TCGCAACGAGAAAATGAAAA
Found at i:1083560 original size:14 final size:14
Alignment explanation
Indices: 1083541--1083597 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
1083531 GAAAAATGAA
1083541 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
1083555 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
1083574 AATCGTAACGAGAG
1 AATCGCAACGAGAG
1083588 AATCGCAACG
1 AATCGCAACG
1083598 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
14 19 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 9 0.26
ACGTcount: A:0.44, C:0.21, G:0.25, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:1083572 original size:33 final size:33
Alignment explanation
Indices: 1083534--1083613 Score: 133
Period size: 33 Copynumber: 2.4 Consensus size: 33
1083524 GCAACGAGAA
1083534 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
*
1083567 AAATGAAAATCGTAACGAGAGAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
**
1083600 AAACCAAAATCGCA
1 AAATGAAAATCGCA
1083614 TTGCGATTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.47, C:0.21, G:0.21, T:0.10
Consensus pattern (33 bp):
AAATGAAAATCGCAACGAGAGAATCGCAACGCG
Found at i:1083631 original size:19 final size:19
Alignment explanation
Indices: 1083609--1083736 Score: 87
Period size: 19 Copynumber: 7.1 Consensus size: 19
1083599 GAAACCAAAA
*
1083609 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1083628 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
1083642 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1083661 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
1083675 TCTCGTTGCGATTTTCATTT
1 TCGCGTTGCGATTTTCA-TT
* ***
1083695 CTCTCGTTGCGACAGTCATT
1 -TCGCGTTGCGATTTTCATT
*
1083715 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
1083735 TC
1 TC
1083737 AACCAAAAGA
Statistics
Matches: 87, Mismatches: 10, Indels: 24
0.72 0.08 0.20
Matches are distributed among these distances:
14 20 0.23
16 6 0.07
17 6 0.07
19 22 0.25
20 19 0.22
21 14 0.16
ACGTcount: A:0.11, C:0.25, G:0.19, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:1083650 original size:14 final size:14
Alignment explanation
Indices: 1083631--1083687 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1083621 TTTCATTTCG
1083631 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
1083645 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
1083664 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
1083678 CGTTGCGATT
1 CGTTGCGATT
1083688 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:1083656 original size:33 final size:33
Alignment explanation
Indices: 1083614--1083736 Score: 165
Period size: 33 Copynumber: 3.5 Consensus size: 33
1083604 CAAAATCGCA
1083614 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1083647 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
1083680 TTGCGATTTTCATTTCTCTCGTTGCGACAGTCATTCTCTCG
1 TTGCGATTTTCA-TT-TCGCGTT--G-C-G--ATTCTCTCG
1083721 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
1083737 AACCAAAAGA
Statistics
Matches: 81, Mismatches: 1, Indels: 10
0.88 0.01 0.11
Matches are distributed among these distances:
33 45 0.56
34 2 0.02
35 6 0.07
37 1 0.01
38 1 0.01
39 3 0.04
40 2 0.02
41 21 0.26
ACGTcount: A:0.11, C:0.24, G:0.19, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:1083698 original size:21 final size:21
Alignment explanation
Indices: 1083672--1083736 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
1083662 CGCGTTGCGA
1083672 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
1083693 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
1083713 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
1083734 TTC
1 TTC
1083737 AACCAAAAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.11, C:0.26, G:0.15, T:0.48
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:1085575 original size:93 final size:93
Alignment explanation
Indices: 1085416--1085962 Score: 973
Period size: 93 Copynumber: 6.1 Consensus size: 93
1085406 TAGATTGCTT
*
1085416 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1085481 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1085509 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1085574 -----------TTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1085591 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1085656 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1085684 AGTAAATTTGTTCGGTTGCTGCCAATT-TGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1085748 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1085776 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTA---TTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1085838 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1085866 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1085931 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1085958 AGTAA
1 AGTAA
1085963 TGCAATCGAT
Statistics
Matches: 438, Mismatches: 1, Indels: 31
0.93 0.00 0.07
Matches are distributed among these distances:
82 82 0.19
90 90 0.21
92 98 0.22
93 168 0.38
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:1085592 original size:82 final size:83
Alignment explanation
Indices: 1085491--1085939 Score: 586
Period size: 92 Copynumber: 5.1 Consensus size: 83
1085481 TTTGTCTTTG
1085491 TTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTT
1 TTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTT
1085556 TAACACTGTGAAATAGTA
66 TAACACTGTGAAATAGTA
1085574 -TTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTT
1 TTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTT
1085638 TAACACTGTGAAATAGTA
66 TAACACTGTGAAATAGTA
1085656 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATT-TGCTAAACT
1 ----------TTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
1085720 GTGTATTCTTTAACACTGTGAAATAGTA
56 GTGTATTCTTTAACACTGTGAAATAGTA
1085748 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
1 ----------TTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
1085813 GTGTA---TTTAACACTGTGAAATAGTA
56 GTGTATTCTTTAACACTGTGAAATAGTA
1085838 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
1 ----------TTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
1085903 GTGTATTCTTTAACACTGTGAAATAGTA
56 GTGTATTCTTTAACACTGTGAAATAGTA
1085931 -TTTGTCTTT
1 TTTTGTCTTT
1085940 GTTTTGTCTT
Statistics
Matches: 351, Mismatches: 0, Indels: 31
0.92 0.00 0.08
Matches are distributed among these distances:
82 91 0.26
90 90 0.26
92 92 0.26
93 78 0.22
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (83 bp):
TTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTT
TAACACTGTGAAATAGTA
Found at i:1085707 original size:175 final size:175
Alignment explanation
Indices: 1085416--1085939 Score: 912
Period size: 175 Copynumber: 3.0 Consensus size: 175
1085406 TAGATTGCTT
*
1085416 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1085481 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
1085546 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTTGGTTGAA
1085591 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1085656 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATT-TGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
1085720 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTA-----------TTTGTCTTTTGGTTGAA
1085776 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTA---TTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1085838 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
1085903 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTT
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTT
1085940 GTTTTGTCTT
Statistics
Matches: 336, Mismatches: 1, Indels: 27
0.92 0.00 0.07
Matches are distributed among these distances:
172 9 0.03
174 37 0.11
175 119 0.35
182 75 0.22
183 37 0.11
185 59 0.18
ACGTcount: A:0.23, C:0.13, G:0.19, T:0.45
Consensus pattern (175 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTTGGTTGAA
Found at i:1085988 original size:275 final size:263
Alignment explanation
Indices: 1085437--1085962 Score: 867
Period size: 275 Copynumber: 1.9 Consensus size: 263
1085427 TCGGTTGCTG
1085437 CCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTT
1 CCAATT-TGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTT
1085502 GGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGA
65 GGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTA-T-TTTAACACTGTGA
1085567 AATAGTATTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGT
128 AATAGTATTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGT
* *
1085632 ATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTC
193 ATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAAATCGTTC
*
1085697 GGTTGCT
258 AGTT-CT
1085704 GCCAATTTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTT
1 -CCAATTTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTT
1085769 GGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTA-TTTAACACTGTGAAA
65 GGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTTTAACACTGTGAAA
1085833 TAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCT
130 TAGTA-----------TTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCT
1085898 AAACTGTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTG-AAGTA
184 AAACTGTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTA
1085962 A
249 A
1085963 TGCAATCGAT
Statistics
Matches: 247, Mismatches: 0, Indels: 16
0.94 0.00 0.06
Matches are distributed among these distances:
264 20 0.08
267 107 0.43
268 6 0.02
274 6 0.02
275 108 0.44
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (263 bp):
CCAATTTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTG
GTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTTTAACACTGTGAAAT
AGTATTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATT
CTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAAATCGTTCAGT
TCT
Found at i:1086066 original size:19 final size:17
Alignment explanation
Indices: 1086042--1086133 Score: 70
Period size: 19 Copynumber: 5.4 Consensus size: 17
1086032 GCAACGAGAG
1086042 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAA--AA
*
1086061 AATCGCAA--C-AAAAG
1 AATCGCAACGCGAAAAA
1086075 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAA--AA
*
1086094 AATCGCAA--CG-ACAA
1 AATCGCAACGCGAAAAA
1086108 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAA--AA
1086127 AATCGCA
1 AATCGCA
1086134 TTGCGATTTT
Statistics
Matches: 59, Mismatches: 4, Indels: 20
0.71 0.05 0.24
Matches are distributed among these distances:
14 19 0.32
16 7 0.12
17 7 0.12
19 26 0.44
ACGTcount: A:0.49, C:0.27, G:0.16, T:0.08
Consensus pattern (17 bp):
AATCGCAACGCGAAAAA
Found at i:1086068 original size:33 final size:33
Alignment explanation
Indices: 1086010--1086133 Score: 169
Period size: 33 Copynumber: 3.7 Consensus size: 33
1086000 TAGTTTACTT
* * *
1086010 TCGCAACACGAAACTTAAAATCGCAACGAGAGAA
1 TCGCAACGCGAAAC-CAAAATCGCAACGAAAGAA
** *
1086044 TCGCAACGCGAAATGAAAATCGCAACAAAAGAA
1 TCGCAACGCGAAACCAAAATCGCAACGAAAGAA
1086077 TCGCAACGCGAAACCAAAATCGCAACGACAA-AA
1 TCGCAACGCGAAACCAAAATCGCAACGA-AAGAA
1086110 TCGCAACGCGAAACCAAAATCGCA
1 TCGCAACGCGAAACCAAAATCGCA
1086134 TTGCGATTTT
Statistics
Matches: 81, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
33 67 0.83
34 14 0.17
ACGTcount: A:0.48, C:0.27, G:0.17, T:0.09
Consensus pattern (33 bp):
TCGCAACGCGAAACCAAAATCGCAACGAAAGAA
Found at i:1086110 original size:14 final size:14
Alignment explanation
Indices: 1086091--1086117 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1086081 AACGCGAAAC
1086091 CAAAATCGCAACGA
1 CAAAATCGCAACGA
1086105 CAAAATCGCAACG
1 CAAAATCGCAACG
1086118 CGAAACCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.30, G:0.15, T:0.07
Consensus pattern (14 bp):
CAAAATCGCAACGA
Found at i:1086151 original size:19 final size:19
Alignment explanation
Indices: 1086129--1086300 Score: 150
Period size: 19 Copynumber: 9.6 Consensus size: 19
1086119 GAAACCAAAA
*
1086129 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1086148 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
1086162 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
1086181 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
1086197 T--CGTTGCG-TTTTCATT
1 TCGCGTTGCGATTTTCATT
**
1086213 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
**
1086232 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
* *
1086251 TCTCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATT
*
1086270 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
1086290 TCGTGTTGCGA
1 TCGCGTTGCGA
1086301 AAGTAAACTA
Statistics
Matches: 124, Mismatches: 17, Indels: 23
0.76 0.10 0.14
Matches are distributed among these distances:
14 16 0.13
15 3 0.02
16 7 0.06
17 6 0.05
18 7 0.06
19 73 0.59
20 12 0.10
ACGTcount: A:0.10, C:0.20, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:1086176 original size:33 final size:33
Alignment explanation
Indices: 1086134--1086225 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
1086124 CAAAATCGCA
1086134 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
1086167 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1086200 TTGCG-TTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
1086226 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
32 20 0.36
33 36 0.64
ACGTcount: A:0.10, C:0.22, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:1086235 original size:51 final size:54
Alignment explanation
Indices: 1086165--1086284 Score: 147
Period size: 51 Copynumber: 2.2 Consensus size: 54
1086155 GCGATTCTCT
*
1086165 CGTTGCGATTTTCATTTCGCATTGCGATTCT-G-TCGTTGCG-TTTTCATTTCG
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTGGTTCGTTGCGATTCTCATTTCG
** * *
1086216 CGTTGCGATTTTGGTTTCGCGTTGCGATTTTGGTTTCTCGTTGCGATTCTCATTTCG
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTGG--T-TCGTTGCGATTCTCATTTCG
1086273 CGTTGCGATTTT
1 CGTTGCGATTTT
1086285 AAGTTTCGTG
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
51 27 0.47
52 1 0.02
56 8 0.14
57 22 0.38
ACGTcount: A:0.08, C:0.20, G:0.24, T:0.47
Consensus pattern (54 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTGGTTCGTTGCGATTCTCATTTCG
Found at i:1086238 original size:32 final size:30
Alignment explanation
Indices: 1086134--1086238 Score: 104
Period size: 33 Copynumber: 3.2 Consensus size: 30
1086124 CAAAATCGCA
1086134 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG-
1 TTGCG-TTTTCATTTCGCGTTGCGATT-T-T-GT
* *
1086167 TTGCGATTTTCATTTCGCATTGCGATTCTGT
1 TTGCG-TTTTCATTTCGCGTTGCGATTTTGT
1086198 CGTTGCGTTTTCATTTCGCGTTGCGATTTTGGT
1 --TTGCGTTTTCATTTCGCGTTGCGATTTT-GT
1086231 TTCGCGTT
1 TT-GCGTT
1086239 GCGATTTTGG
Statistics
Matches: 63, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
30 1 0.02
31 3 0.05
32 26 0.41
33 33 0.52
ACGTcount: A:0.09, C:0.21, G:0.23, T:0.48
Consensus pattern (30 bp):
TTGCGTTTTCATTTCGCGTTGCGATTTTGT
Found at i:1088228 original size:14 final size:14
Alignment explanation
Indices: 1088209--1088244 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
1088199 ATTGTTTAAT
1088209 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
1088223 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
1088237 TGATTTGT
1 TGATTTGT
1088245 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:1088367 original size:19 final size:19
Alignment explanation
Indices: 1088351--1088448 Score: 134
Period size: 19 Copynumber: 5.4 Consensus size: 19
1088341 AAAAATGACT
1088351 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
1088370 ATCGCAATACGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
1088389 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
1088403 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
1088422 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
1088442 ATCGCAA
1 ATCGCAA
1088449 CGAGAGAATC
Statistics
Matches: 70, Mismatches: 3, Indels: 11
0.83 0.04 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 38 0.54
20 16 0.23
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:1088480 original size:53 final size:53
Alignment explanation
Indices: 1088351--1088467 Score: 218
Period size: 53 Copynumber: 2.2 Consensus size: 53
1088341 AAAAATGACT
*
1088351 ATCGCAATGCGAAATGAAAATCGCAATAC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1088403 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1088456 ATCGCAATGCGA
1 ATCGCAATGCGA
1088468 TTTTAATTTC
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
52 28 0.44
53 35 0.56
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.14
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:1088485 original size:19 final size:19
Alignment explanation
Indices: 1088457--1088660 Score: 178
Period size: 19 Copynumber: 11.7 Consensus size: 19
1088447 AACGAGAGAA
* *
1088457 TCGCAATGCGATTTTAATT
1 TCGCATTGCGATTTTCATT
*
1088476 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
1088492 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
1088509 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
1088528 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
1088544 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
1088561 TCCGCATTGCGA--TTC-TC
1 T-CGCATTGCGATTTTCATT
*
1088578 TCG--TTGCAATTTTCATT
1 TCGCATTGCGATTTTCATT
*
1088595 TCACATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
1088614 TCCGCATTGCGATTTTCA--
1 T-CGCATTGCGATTTTCATT
*
1088632 T-G--TTGGGATTTTCATT
1 TCGCATTGCGATTTTCATT
1088648 TCGCATTGCGATT
1 TCGCATTGCGATT
1088661 CTCTCATTGC
Statistics
Matches: 149, Mismatches: 14, Indels: 44
0.72 0.07 0.21
Matches are distributed among these distances:
14 28 0.19
16 21 0.14
17 17 0.11
18 6 0.04
19 56 0.38
20 21 0.14
ACGTcount: A:0.16, C:0.22, G:0.17, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:1088520 original size:52 final size:52
Alignment explanation
Indices: 1088457--1088574 Score: 209
Period size: 52 Copynumber: 2.2 Consensus size: 52
1088447 AACGAGAGAA
*
1088457 TCGCAATGCGATTTTAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
*
1088509 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1088561 TCCGCATTGCGATT
1 T-CGCATTGCGATT
1088575 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
52 51 0.81
53 12 0.19
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.44
Consensus pattern (52 bp):
TCGCATTGCGATTTTAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:1088571 original size:86 final size:86
Alignment explanation
Indices: 1088463--1088674 Score: 338
Period size: 86 Copynumber: 2.5 Consensus size: 86
1088453 AGAATCGCAA
* *
1088463 TGCGATTTTAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCACATTGCGATTTTCATT
1088528 T-CGCATTGCGATTCTC-TCGT
66 TCCGCATTGCGATTCTCAT-GT
*
1088548 TGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCAATTTTCATTTCACATTGCGATTTTCAT
1 TGCGATTTTCATTT-CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCACATTGCGATTTTCAT
*
1088613 TTCCGCATTGCGATTTTCATGT
65 TTCCGCATTGCGATTCTCATGT
* *
1088635 TGGGATTTTCATTTCGCATTGCGATTCTCTCATTGCGATT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATT
1088675 GTAATTTCCG
Statistics
Matches: 117, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
85 13 0.11
86 74 0.63
87 29 0.25
88 1 0.01
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.46
Consensus pattern (86 bp):
TGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCACATTGCGATTTTCATT
TCCGCATTGCGATTCTCATGT
Found at i:1088572 original size:34 final size:33
Alignment explanation
Indices: 1088514--1088607 Score: 161
Period size: 34 Copynumber: 2.8 Consensus size: 33
1088504 TCATTTCGCA
1088514 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1088547 TTGCGATTTTCATTTCCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTT-CGCATTGCGATTCTCTCG
* *
1088581 TTGCAATTTTCATTTCACATTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATT
1088608 TTCATTTCCG
Statistics
Matches: 58, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
33 26 0.45
34 32 0.55
ACGTcount: A:0.15, C:0.23, G:0.16, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:1088604 original size:53 final size:53
Alignment explanation
Indices: 1088495--1088660 Score: 189
Period size: 53 Copynumber: 3.2 Consensus size: 53
1088485 GATTCTCTCG
* * * *
1088495 TTGCGATTTTCATTT-CGCATTGCGATTTTCAT-TTCGC-A-TTGCGATTCTCTCG
1 TTGCGATTTTCATTTCCGCATTGCGATTCTCATGTT-GCAATTTTC-ATT-TCACA
1088547 TTGCGATTTTCATTTCCGCATTGCGATTCTC-TCGTTGCAATTTTCATTTCACA
1 TTGCGATTTTCATTTCCGCATTGCGATTCTCAT-GTTGCAATTTTCATTTCACA
* ** *
1088600 TTGCGATTTTCATTTCCGCATTGCGATTTTCATGTTGGGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCCGCATTGCGATTCTCATGTTGCAATTTTCATTTCACA
1088653 TTGCGATT
1 TTGCGATT
1088661 CTCTCATTGC
Statistics
Matches: 100, Mismatches: 8, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
52 16 0.16
53 74 0.74
54 7 0.07
55 3 0.03
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.46
Consensus pattern (53 bp):
TTGCGATTTTCATTTCCGCATTGCGATTCTCATGTTGCAATTTTCATTTCACA
Found at i:1088682 original size:33 final size:31
Alignment explanation
Indices: 1088598--1088674 Score: 100
Period size: 33 Copynumber: 2.3 Consensus size: 31
1088588 TTTCATTTCA
1088598 CATTGCGATTTTCATTTCCGCATTGCGATTTT
1 CATTGCGATTTTCATTT-CGCATTGCGATTTT
*
1088630 CATGTTGGGATTTTCATTTCGCATTGCGATTCTCT
1 CA--TTGCGATTTTCATTTCGCATTGCGATT-T-T
1088665 CATTGCGATT
1 CATTGCGATT
1088675 GTAATTTCCG
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
32 2 0.05
33 19 0.49
34 15 0.38
35 3 0.08
ACGTcount: A:0.16, C:0.21, G:0.18, T:0.45
Consensus pattern (31 bp):
CATTGCGATTTTCATTTCGCATTGCGATTTT
Found at i:1090275 original size:12 final size:12
Alignment explanation
Indices: 1090258--1090282 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1090248 TCTTCGGGGA
1090258 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1090270 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1090282 C
1 C
1090283 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:1091216 original size:20 final size:20
Alignment explanation
Indices: 1091188--1091416 Score: 253
Period size: 20 Copynumber: 11.4 Consensus size: 20
1091178 AAATTTCAGT
* * *
1091188 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
1091208 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
1091228 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
1091248 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
1091268 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
1091288 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
1091308 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
1091328 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
*
1091348 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
1091368 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
1091388 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
1091408 GTTGCGATT
1 GTTGCGATT
1091417 CTGTAAAATC
Statistics
Matches: 185, Mismatches: 22, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
20 184 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:1091434 original size:21 final size:20
Alignment explanation
Indices: 1091410--1091459 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
1091400 ATATTCGCGT
1091410 TGCGATTCTGTAAAATCGCAA
1 TGCGATT-TGTAAAATCGCAA
** *
1091431 TGCGAATTTGTACTATCGCAT
1 TGCG-ATTTGTAAAATCGCAA
1091452 TGCGATTT
1 TGCGATTT
1091460 TCAAGAATCG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 4 0.16
21 18 0.72
22 3 0.12
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (20 bp):
TGCGATTTGTAAAATCGCAA
Found at i:1091768 original size:2 final size:2
Alignment explanation
Indices: 1091761--1091794 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1091751 GCCTGATGGA
1091761 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
1091795 TTAAATGGCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1092153 original size:2 final size:2
Alignment explanation
Indices: 1092146--1092198 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
1092136 TATGCATGTG
1092146 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1092188 TA TA TA TA TA T
1 TA TA TA TA TA T
1092199 GGTGTTATTG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1092888 original size:11 final size:9
Alignment explanation
Indices: 1092860--1092884 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
1092850 ATTTTGTAAA
1092860 AAAAATTAT
1 AAAAATTAT
1092869 AAAAATTAT
1 AAAAATTAT
1092878 AAAAATT
1 AAAAATT
1092885 TTATGAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (9 bp):
AAAAATTAT
Found at i:1097332 original size:31 final size:31
Alignment explanation
Indices: 1097294--1097459 Score: 183
Period size: 31 Copynumber: 5.4 Consensus size: 31
1097284 CTAATGTGAC
* *
1097294 TCTTGGGTAGGCTCTACGGCCCTGAGATCAT
1 TCTTGGGTAGGCCCTACGGCCCTGAGATCTT
* * *
1097325 TCTTGGGTAGGCCCTGCAGCCCTGAGATTTT
1 TCTTGGGTAGGCCCTACGGCCCTGAGATCTT
*** *
1097356 TCTTGGGTAGGCCCCGTGGCCTTGAGATCTT
1 TCTTGGGTAGGCCCTACGGCCCTGAGATCTT
*
1097387 TCTTAGGTAGGCCCTACGGCCCTGAGATCTT
1 TCTTGGGTAGGCCCTACGGCCCTGAGATCTT
* * * *
1097418 TCTTAGATAGGCCC--CGTGGCCTGAAATCTT
1 TCTTGGGTAGGCCCTACG-GCCCTGAGATCTT
1097448 TCTTGGGTAGGC
1 TCTTGGGTAGGC
1097460 TCTCAAGCCC
Statistics
Matches: 114, Mismatches: 20, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
29 2 0.02
30 21 0.18
31 91 0.80
ACGTcount: A:0.14, C:0.26, G:0.29, T:0.31
Consensus pattern (31 bp):
TCTTGGGTAGGCCCTACGGCCCTGAGATCTT
Found at i:1097396 original size:62 final size:61
Alignment explanation
Indices: 1097314--1097459 Score: 211
Period size: 62 Copynumber: 2.4 Consensus size: 61
1097304 GCTCTACGGC
* * * * *
1097314 CCTGAGATCATTCTTGGGTAGGCCCTGCAGCCCTGAGATTTTTCTTGGGTAGGCCCCGTGG
1 CCTGAGATCTTTCTTGGGTAGGCCCTACAGCCCTGAGATCTTTCTTAGATAGGCCCCGTGG
* *
1097375 CCTTGAGATCTTTCTTAGGTAGGCCCTACGGCCCTGAGATCTTTCTTAGATAGGCCCCGTGG
1 CC-TGAGATCTTTCTTGGGTAGGCCCTACAGCCCTGAGATCTTTCTTAGATAGGCCCCGTGG
*
1097437 CCTGAAATCTTTCTTGGGTAGGC
1 CCTGAGATCTTTCTTGGGTAGGC
1097460 TCTCAAGCCC
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
61 21 0.28
62 54 0.72
ACGTcount: A:0.15, C:0.26, G:0.28, T:0.31
Consensus pattern (61 bp):
CCTGAGATCTTTCTTGGGTAGGCCCTACAGCCCTGAGATCTTTCTTAGATAGGCCCCGTGG
Found at i:1102578 original size:22 final size:22
Alignment explanation
Indices: 1102553--1102596 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
1102543 AGATTGTTAA
1102553 AAGTCATAAAAAGGGGCTGCAC
1 AAGTCATAAAAAGGGGCTGCAC
* *
1102575 AAGTCATAGAAAGGGGTTGCAC
1 AAGTCATAAAAAGGGGCTGCAC
1102597 CGAAAGTGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.39, C:0.16, G:0.30, T:0.16
Consensus pattern (22 bp):
AAGTCATAAAAAGGGGCTGCAC
Found at i:1110429 original size:23 final size:23
Alignment explanation
Indices: 1110403--1110454 Score: 95
Period size: 23 Copynumber: 2.2 Consensus size: 23
1110393 TTTGATCAAT
1110403 TATATAATGTGATATATAAATTG
1 TATATAATGTGATATATAAATTG
1110426 TATATAATGTGATATATAAATTG
1 TATATAATGTGATATATAAATTG
1110449 TGATAT
1 T-ATAT
1110455 GATTTAATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 24 0.86
24 4 0.14
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.44
Consensus pattern (23 bp):
TATATAATGTGATATATAAATTG
Found at i:1110450 original size:14 final size:13
Alignment explanation
Indices: 1110403--1110454 Score: 67
Period size: 12 Copynumber: 4.2 Consensus size: 13
1110393 TTTGATCAAT
1110403 TATAT-AATGTGA
1 TATATAAATGTGA
1110415 TATATAAAT-TG-
1 TATATAAATGTGA
1110426 TATAT-AATGTGA
1 TATATAAATGTGA
1110438 TATATAAATTGTGA
1 TATATAAA-TGTGA
1110452 TAT
1 TAT
1110455 GATTTAATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
10 3 0.09
11 7 0.20
12 12 0.34
13 5 0.14
14 8 0.23
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.44
Consensus pattern (13 bp):
TATATAAATGTGA
Found at i:1110466 original size:23 final size:23
Alignment explanation
Indices: 1110403--1110468 Score: 78
Period size: 23 Copynumber: 2.8 Consensus size: 23
1110393 TTTGATCAAT
*
1110403 TATATAATGTGATATATAAATTG
1 TATATAATGTAATATATAAATTG
*
1110426 TATATAATGTGATATATAAATTG
1 TATATAATGTAATATATAAATTG
* *
1110449 TGATATGATTTAATTATATA
1 T-ATATAATGTAA-TATATA
1110469 CATAAAACTT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
23 24 0.63
24 8 0.21
25 6 0.16
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.45
Consensus pattern (23 bp):
TATATAATGTAATATATAAATTG
Found at i:1110910 original size:27 final size:26
Alignment explanation
Indices: 1110870--1110934 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
1110860 GGCCAACACG
* *
1110870 ACCTGACCCAAAAATTTTATATCCTTC
1 ACCTGACCCAAAAA-TATATACCCTTC
**
1110897 ACCTGACCTGAAAATATATACCCTTC
1 ACCTGACCCAAAAATATATACCCTTC
*
1110923 ACCCGACCCAAA
1 ACCTGACCCAAA
1110935 CCCGACCCAA
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
26 19 0.61
27 12 0.39
ACGTcount: A:0.35, C:0.34, G:0.06, T:0.25
Consensus pattern (26 bp):
ACCTGACCCAAAAATATATACCCTTC
Found at i:1112657 original size:12 final size:12
Alignment explanation
Indices: 1112640--1112681 Score: 61
Period size: 12 Copynumber: 3.6 Consensus size: 12
1112630 TTTGATCAAT
1112640 TATATAATGTGA
1 TATATAATGTGA
1112652 TATATAAAT-TG-
1 TATAT-AATGTGA
1112663 TATATAATGTGA
1 TATATAATGTGA
1112675 TATATAA
1 TATATAA
1112682 ATTATGATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 3 0.11
11 7 0.26
12 14 0.52
13 3 0.11
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.43
Consensus pattern (12 bp):
TATATAATGTGA
Found at i:1112666 original size:23 final size:23
Alignment explanation
Indices: 1112640--1112684 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
1112630 TTTGATCAAT
1112640 TATATAATGTGATATATAAATTG
1 TATATAATGTGATATATAAATTG
1112663 TATATAATGTGATATATAAATT
1 TATATAATGTGATATATAAATT
1112685 ATGATATGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (23 bp):
TATATAATGTGATATATAAATTG
Found at i:1116277 original size:6 final size:6
Alignment explanation
Indices: 1116255--1116296 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
1116245 GTAAAAATGT
*
1116255 AATTAA TAATAAA AATTAA AATT-- AATTAA AATTAA AATTAA A
1 AATTAA -AATTAA AATTAA AATTAA AATTAA AATTAA AATTAA A
1116297 GGGCCTAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
4 4 0.13
6 22 0.71
7 5 0.16
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AATTAA
Found at i:1116285 original size:16 final size:16
Alignment explanation
Indices: 1116261--1116295 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
1116251 ATGTAATTAA
1116261 TAATAAAAATTAAAAT
1 TAATAAAAATTAAAAT
*
1116277 TAATTAAAATTAAAAT
1 TAATAAAAATTAAAAT
1116293 TAA
1 TAA
1116296 AGGGCCTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
TAATAAAAATTAAAAT
Found at i:1116457 original size:2 final size:2
Alignment explanation
Indices: 1116450--1116477 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1116440 CGTTTGATTC
1116450 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
1116478 TATTAATAAA
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:1116826 original size:50 final size:50
Alignment explanation
Indices: 1116751--1116850 Score: 155
Period size: 50 Copynumber: 2.0 Consensus size: 50
1116741 TAATTCGTGC
* * * *
1116751 TCGGAAATATAATGCATGGTTAATAAATTATACGTGCTTGATATGATATT
1 TCGGAAATACAATGCATGATTAATAAAATATACGTGCTTGATAAGATATT
*
1116801 TCGGAAATACAATGTATGATTAATAAAATATACGTGCTTGATAAGATATT
1 TCGGAAATACAATGCATGATTAATAAAATATACGTGCTTGATAAGATATT
1116851 CTTATTTTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.39, C:0.08, G:0.17, T:0.36
Consensus pattern (50 bp):
TCGGAAATACAATGCATGATTAATAAAATATACGTGCTTGATAAGATATT
Found at i:1125210 original size:21 final size:20
Alignment explanation
Indices: 1125167--1125231 Score: 80
Period size: 21 Copynumber: 3.3 Consensus size: 20
1125157 TATGGTATGT
* *
1125167 TTAAAAAAAGATTAAA-A-A
1 TTAAAAAATGAATAAATATA
1125185 TTAAAAAATGAATAAATATTA
1 TTAAAAAATGAATAAATA-TA
*
1125206 TTAAAATATGAATAAATATA
1 TTAAAAAATGAATAAATATA
1125226 TTAAAA
1 TTAAAA
1125232 TTATTAAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
18 14 0.34
19 1 0.02
20 8 0.20
21 18 0.44
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.31
Consensus pattern (20 bp):
TTAAAAAATGAATAAATATA
Found at i:1125243 original size:21 final size:21
Alignment explanation
Indices: 1125184--1125243 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
1125174 AAGATTAAAA
* *
1125184 ATTAAAAAATGAATAAATATT
1 ATTAAAATATGAAAAAATATT
*
1125205 ATTAAAATATGAATAAATA-T
1 ATTAAAATATGAAAAAATATT
*
1125225 ATTAAAATTATTAAAAAAT
1 ATTAAAA-TATGAAAAAAT
1125244 TAAAAATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
20 8 0.23
21 27 0.77
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (21 bp):
ATTAAAATATGAAAAAATATT
Found at i:1125249 original size:18 final size:17
Alignment explanation
Indices: 1125225--1125299 Score: 60
Period size: 18 Copynumber: 4.2 Consensus size: 17
1125215 GAATAAATAT
*
1125225 ATTAAAATTATTAAAAA
1 ATTAAAAATATTAAAAA
* **
1125242 ATTAAAAATTATGAACATT
1 ATTAAAAA-TATTAA-AAA
*
1125261 ATTAAAAATGTTAAAAA
1 ATTAAAAATATTAAAAA
* *
1125278 CAGTAAAAAGATTAAAAA
1 -ATTAAAAATATTAAAAA
1125296 ATTA
1 ATTA
1125300 TTAAAATTAC
Statistics
Matches: 43, Mismatches: 12, Indels: 6
0.70 0.20 0.10
Matches are distributed among these distances:
17 11 0.26
18 23 0.53
19 9 0.21
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.31
Consensus pattern (17 bp):
ATTAAAAATATTAAAAA
Found at i:1125267 original size:27 final size:28
Alignment explanation
Indices: 1125180--1125277 Score: 85
Period size: 29 Copynumber: 3.4 Consensus size: 28
1125170 AAAAAAGATT
1125180 AAAAATTAAAAA-ATGAAT-AAATATTATTA
1 AAAAATTAAAAATAT--ATGAAA-ATTATTA
* * *
1125209 AAATATGAATAAATATATTAAAATTATTA
1 AAAAATTAA-AAATATATGAAAATTATTA
*
1125238 AAAAATTAAAAAT-TATGAACATTATTA
1 AAAAATTAAAAATATATGAAAATTATTA
*
1125265 AAAATGTTAAAAA
1 AAAA-ATTAAAAA
1125278 CAGTAAAAAG
Statistics
Matches: 58, Mismatches: 7, Indels: 9
0.78 0.09 0.12
Matches are distributed among these distances:
27 16 0.28
28 11 0.19
29 23 0.40
30 6 0.10
31 2 0.03
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (28 bp):
AAAAATTAAAAATATATGAAAATTATTA
Found at i:1127578 original size:5 final size:5
Alignment explanation
Indices: 1127568--1127592 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
1127558 CTTGACATCC
1127568 TTTTG TTTTG TTTTG TTTTG TTTTG
1 TTTTG TTTTG TTTTG TTTTG TTTTG
1127593 AGTGGCTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.20, T:0.80
Consensus pattern (5 bp):
TTTTG
Found at i:1129629 original size:13 final size:13
Alignment explanation
Indices: 1129611--1129636 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1129601 TTCAATTCAA
1129611 ATATATAATATAT
1 ATATATAATATAT
1129624 ATATATAATATAT
1 ATATATAATATAT
1129637 CTGTGTGTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
ATATATAATATAT
Found at i:1135824 original size:23 final size:23
Alignment explanation
Indices: 1135787--1135879 Score: 150
Period size: 23 Copynumber: 4.0 Consensus size: 23
1135777 CAGTCACCGA
1135787 CCGACCACCGGCCGATTACTATT
1 CCGACCACCGGCCGATTACTATT
* * *
1135810 CCAATCACCGACCGATTACTATT
1 CCGACCACCGGCCGATTACTATT
*
1135833 CCGACCACCGGTCGATTACTATT
1 CCGACCACCGGCCGATTACTATT
1135856 CCGACCACCGGCCGATTACTATT
1 CCGACCACCGGCCGATTACTATT
1135879 C
1 C
1135880 ACCATCGTCG
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 62 1.00
ACGTcount: A:0.24, C:0.38, G:0.15, T:0.24
Consensus pattern (23 bp):
CCGACCACCGGCCGATTACTATT
Found at i:1136482 original size:3 final size:3
Alignment explanation
Indices: 1136474--1136524 Score: 52
Period size: 3 Copynumber: 17.7 Consensus size: 3
1136464 ATTTATTTTG
* ** *
1136474 TAA TAA TAA TAA TAA T-A TGA TAA TAA TAA TTG TAA -CA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1136520 TAA TA
1 TAA TA
1136525 TATAGTCTCT
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
2 3 0.08
3 36 0.92
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:1136498 original size:17 final size:17
Alignment explanation
Indices: 1136476--1136525 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
1136466 TTATTTTGTA
*
1136476 ATAATAATAATAATATG
1 ATAATAATAATAATATC
** *
1136493 ATAATAATAATTGTAAC
1 ATAATAATAATAATATC
1136510 ATAATAATAATAATAT
1 ATAATAATAATAATAT
1136526 ATAGTCTCTG
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (17 bp):
ATAATAATAATAATATC
Found at i:1136499 original size:20 final size:20
Alignment explanation
Indices: 1136474--1136524 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
1136464 ATTTATTTTG
* *
1136474 TAATAATAATAATAATATGA
1 TAATAATAATAATAACATAA
**
1136494 TAATAATAATTGTAACATAA
1 TAATAATAATAATAACATAA
1136514 TAATAATAATA
1 TAATAATAATA
1136525 TATAGTCTCT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (20 bp):
TAATAATAATAATAACATAA
Found at i:1136711 original size:40 final size:40
Alignment explanation
Indices: 1136667--1136751 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
1136657 AAAAACATCA
1136667 TACCCAAAGGT-TTTACAGATGACCCGAAGGTTTTACAAAT
1 TACCCAAA-GTATTTACAGATGACCCGAAGGTTTTACAAAT
** * *
1136707 TACCCGGAGTATTTATAGATGACCCGGAGGTTTTACAAAT
1 TACCCAAAGTATTTACAGATGACCCGAAGGTTTTACAAAT
*
1136747 CACCC
1 TACCC
1136752 GGAGGATTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
39 2 0.05
40 37 0.95
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (40 bp):
TACCCAAAGTATTTACAGATGACCCGAAGGTTTTACAAAT
Found at i:1136751 original size:20 final size:20
Alignment explanation
Indices: 1136674--1136761 Score: 97
Period size: 20 Copynumber: 4.4 Consensus size: 20
1136664 TCATACCCAA
* *
1136674 AGGTTTTACAGATGACCCGA
1 AGGTTTTACAAATGACCCGG
*
1136694 AGGTTTTACAAATTACCCGG
1 AGGTTTTACAAATGACCCGG
* *
1136714 A-GTATTTATAGATGACCCGG
1 AGGT-TTTACAAATGACCCGG
*
1136734 AGGTTTTACAAATCACCCGG
1 AGGTTTTACAAATGACCCGG
*
1136754 AGGATTTA
1 AGGTTTTA
1136762 ATTTTCTAGA
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
19 2 0.04
20 52 0.93
21 2 0.04
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (20 bp):
AGGTTTTACAAATGACCCGG
Found at i:1136752 original size:40 final size:40
Alignment explanation
Indices: 1136678--1136761 Score: 132
Period size: 40 Copynumber: 2.1 Consensus size: 40
1136668 ACCCAAAGGT
* *
1136678 TTTACAGATGACCCGAAGGTTTTACAAATTACCCGGAGTA
1 TTTACAGATGACCCGAAGGTTTTACAAATCACCCGGAGGA
* *
1136718 TTTATAGATGACCCGGAGGTTTTACAAATCACCCGGAGGA
1 TTTACAGATGACCCGAAGGTTTTACAAATCACCCGGAGGA
1136758 TTTA
1 TTTA
1136762 ATTTTCTAGA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (40 bp):
TTTACAGATGACCCGAAGGTTTTACAAATCACCCGGAGGA
Found at i:1136975 original size:119 final size:119
Alignment explanation
Indices: 1136718--1137237 Score: 805
Period size: 119 Copynumber: 4.4 Consensus size: 119
1136708 ACCCGGAGTA
*
1136718 TTTATAGATGACCCG-GAGGTTTTACAAATCACCCGGAGGATTTAATTTTCTAGAACATTAAATG
1 TTTATAGATGA-CCGAGAGGTTTTACAAATTACCCGGAGGATTTAATTTTCTAGAACATTAAATG
* *
1136782 AGAAACTTTGAAAATCGTTTTCTCATTTTCATGCGAAAA-GTCATACCCTGAGGT
65 AGAAACTTTGAAAATCGCTTTCTCATTTTCATGCGAAAACATCATACCCTGAGGT
* * * * *
1136836 TTTACAGATTACCAAGGAGGTTTTACAAATTACCCGGATGATTTAATTTTCTTGAACATTAAATG
1 TTTATAGATGACCGA-GAGGTTTTACAAATTACCCGGAGGATTTAATTTTCTAGAACATTAAATG
*
1136901 AGAAACTTTGAAAATCGCTTTCTCATTTTCATGCGAAAACATCATATCCTGAGGT
65 AGAAACTTTGAAAATCGCTTTCTCATTTTCATGCGAAAACATCATACCCTGAGGT
*
1136956 TTTAAAGATGACCGAGAGGTTTTACAAATTACCCGGAGGATTTAATTTTCTAGAACATTAAATGA
1 TTTATAGATGACCGAGAGGTTTTACAAATTACCCGGAGGATTTAATTTTCTAGAACATTAAATGA
*
1137021 GAAACTTTTAAAATCGCTTTCTCATTTTCATGCGAAAACATTC-TACCCTGAGGT
66 GAAACTTTGAAAATCGCTTTCTCATTTTCATGCGAAAACA-TCATACCCTGAGGT
* * *
1137075 TTTATAGATGGCCCAGAGGTTTTACAAATTACCCGGAGGATTTAATTTTCTAGAGCATTAAATGA
1 TTTATAGATGACCGAGAGGTTTTACAAATTACCCGGAGGATTTAATTTTCTAGAACATTAAATGA
* *
1137140 GAAACTTTGAAAATCGCTTTCTCATTTTTATGCGAAAACATCCTACCCTGAGGT
66 GAAACTTTGAAAATCGCTTTCTCATTTTCATGCGAAAACATCATACCCTGAGGT
* * *
1137194 TTTATAGATGACCCG-GAGGATTTACAAATCACCCAGAGGATTTA
1 TTTATAGATGA-CCGAGAGGTTTTACAAATTACCCGGAGGATTTA
1137238 CAAATCACCC
Statistics
Matches: 369, Mismatches: 27, Indels: 11
0.91 0.07 0.03
Matches are distributed among these distances:
117 2 0.01
118 11 0.03
119 327 0.89
120 29 0.08
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (119 bp):
TTTATAGATGACCGAGAGGTTTTACAAATTACCCGGAGGATTTAATTTTCTAGAACATTAAATGA
GAAACTTTGAAAATCGCTTTCTCATTTTCATGCGAAAACATCATACCCTGAGGT
Found at i:1137141 original size:238 final size:239
Alignment explanation
Indices: 1136718--1137346 Score: 852
Period size: 238 Copynumber: 2.6 Consensus size: 239
1136708 ACCCGGAGTA
*
1136718 TTTATAGATGACCCGGAGGTTTTACAAATCACCCGGAGGATTTAATTTTCTAGAACATTAAATGA
1 TTTATAGATGACCCGGAGGTTTTACAAATTACCCGGAGGATTTAATTTTCTAGAACATTAAATGA
* * * *
1136783 GAAACTTTGAAAATCGTTTTCTCATTTTCATGCG-AAA-AGTCATACCCTGAGGTTTTACAGATT
66 GAAACTTTGAAAATCGCTTTCTCATTTTCATGCGAAAACATTC-TACCCTGAGGTTTTATAGATG
* * * *
1136846 ACCAAGGAGGTTTTACAAATTACCCGGATGATTTAATTTTCTTGAACATTAAATGAGAAACTTTG
130 GCCCAGGAGGTTTTACAAATTACCCGGAGGATTTAATTTTCTAGAACATTAAATGAGAAACTTTG
*
1136911 AAAATCGCTTTCTCATTTTCATGCGAAAACATCATATCCTGAGGT
195 AAAATCGCTTTCTCATTTTCATGCGAAAACATCATACCCTGAGGT
*
1136956 TTTAAAGATGA-CCGAGAGGTTTTACAAATTACCCGGAGGATTTAATTTTCTAGAACATTAAATG
1 TTTATAGATGACCCG-GAGGTTTTACAAATTACCCGGAGGATTTAATTTTCTAGAACATTAAATG
*
1137020 AGAAACTTTTAAAATCGCTTTCTCATTTTCATGCGAAAACATTCTACCCTGAGGTTTTATAGATG
65 AGAAACTTTGAAAATCGCTTTCTCATTTTCATGCGAAAACATTCTACCCTGAGGTTTTATAGATG
*
1137085 GCCCA-GAGGTTTTACAAATTACCCGGAGGATTTAATTTTCTAGAGCATTAAATGAGAAACTTTG
130 GCCCAGGAGGTTTTACAAATTACCCGGAGGATTTAATTTTCTAGAACATTAAATGAGAAACTTTG
* *
1137149 AAAATCGCTTTCTCATTTTTATGCGAAAACATCCTACCCTGAGGT
195 AAAATCGCTTTCTCATTTTCATGCGAAAACATCATACCCTGAGGT
1137194 TTTATAGATGACCCGGAGGATTTACAAATCACCCAGAGGATTTACAAATCACCCGGAGGATTTAA
1 TTTATAGATGACCCGGAGG-TTT-----T-A--CA-A--A--T-----T-ACCCGGAGGATTTAA
* ** * *
1137259 TTTTCTAGAACTTTAAATGAGAAACTTTGGTAATCACTTTCTCATTTTCATGCGAAAACATCCTA
46 TTTTCTAGAACATTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTCATGCGAAAACATTCTA
1137324 CCCTGAGGTTTTATAGATGGCCC
111 CCCTGAGGTTTTATAGATGGCCC
1137347 GAAGGATTTA
Statistics
Matches: 345, Mismatches: 22, Indels: 28
0.87 0.06 0.07
Matches are distributed among these distances:
237 3 0.01
238 203 0.59
239 31 0.09
240 3 0.01
244 1 0.00
245 1 0.00
247 2 0.01
248 1 0.00
250 1 0.00
252 1 0.00
257 1 0.00
258 97 0.28
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (239 bp):
TTTATAGATGACCCGGAGGTTTTACAAATTACCCGGAGGATTTAATTTTCTAGAACATTAAATGA
GAAACTTTGAAAATCGCTTTCTCATTTTCATGCGAAAACATTCTACCCTGAGGTTTTATAGATGG
CCCAGGAGGTTTTACAAATTACCCGGAGGATTTAATTTTCTAGAACATTAAATGAGAAACTTTGA
AAATCGCTTTCTCATTTTCATGCGAAAACATCATACCCTGAGGT
Found at i:1137227 original size:20 final size:20
Alignment explanation
Indices: 1137204--1137257 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
1137194 TTTATAGATG
1137204 ACCCGGAGGATTTACAAATC
1 ACCCGGAGGATTTACAAATC
*
1137224 ACCCAGAGGATTTACAAATC
1 ACCCGGAGGATTTACAAATC
1137244 ACCCGGAGGATTTA
1 ACCCGGAGGATTTA
1137258 ATTTTCTAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.20
Consensus pattern (20 bp):
ACCCGGAGGATTTACAAATC
Found at i:1137282 original size:139 final size:139
Alignment explanation
Indices: 1137086--1137356 Score: 452
Period size: 139 Copynumber: 1.9 Consensus size: 139
1137076 TTATAGATGG
* * *
1137086 CCCAGAGGTTTTACAAATTACCCGGAGGATTTAATTTTCTAGAGCATTAAATGAGAAACTTTGAA
1 CCCAGAGGATTTACAAATCACCCGGAGGATTTAATTTTCTAGAACATTAAATGAGAAACTTTGAA
* * *
1137151 AATCGCTTTCTCATTTTTATGCGAAAACATCCTACCCTGAGGTTTTATAGATGACCCGGAGGATT
66 AATCACTTTCTCATTTTCATGCGAAAACATCCTACCCTGAGGTTTTATAGATGACCCGAAGGATT
1137216 TACAAATCA
131 TACAAATCA
* **
1137225 CCCAGAGGATTTACAAATCACCCGGAGGATTTAATTTTCTAGAACTTTAAATGAGAAACTTTGGT
1 CCCAGAGGATTTACAAATCACCCGGAGGATTTAATTTTCTAGAACATTAAATGAGAAACTTTGAA
*
1137290 AATCACTTTCTCATTTTCATGCGAAAACATCCTACCCTGAGGTTTTATAGATGGCCCGAAGGATT
66 AATCACTTTCTCATTTTCATGCGAAAACATCCTACCCTGAGGTTTTATAGATGACCCGAAGGATT
1137355 TA
131 TA
1137357 ATTTTCTTGA
Statistics
Matches: 122, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
139 122 1.00
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (139 bp):
CCCAGAGGATTTACAAATCACCCGGAGGATTTAATTTTCTAGAACATTAAATGAGAAACTTTGAA
AATCACTTTCTCATTTTCATGCGAAAACATCCTACCCTGAGGTTTTATAGATGACCCGAAGGATT
TACAAATCA
Found at i:1137425 original size:99 final size:99
Alignment explanation
Indices: 1137245--1137554 Score: 469
Period size: 99 Copynumber: 3.1 Consensus size: 99
1137235 TTACAAATCA
* *
1137245 CCCGGAGGATTTAATTTTCTAGAACTTTAAATGAGAAACTTTGGTAATCACTTTCTCATTTTCAT
1 CCCGGAGGATTTAATTTTCTTGAACATTAAATGAGAAACTTTGGTAATCACTTTCTCATTTTCAT
*
1137310 GCGAAAACATCCTACCCTGAGGTTTTATAGATGG
66 GCGAAAACATCATACCCTGAGGTTTTATAGATGG
* * *
1137344 CCCGAAGGATTTAATTTTCTTGAAAATTAAATGAGAAACTTTGGTAACCACTTTCTCATTTTCAT
1 CCCGGAGGATTTAATTTTCTTGAACATTAAATGAGAAACTTTGGTAATCACTTTCTCATTTTCAT
* *
1137409 GTGAAAACATCATACCCTGAGGTTTTATAGATGA
66 GCGAAAACATCATACCCTGAGGTTTTATAGATGG
* **
1137443 CCCGGAGGATTTACTTTTCTTGAACATTAAATGAGAAACTTTGGTAATCGTTTTCTCATTTTCAT
1 CCCGGAGGATTTAATTTTCTTGAACATTAAATGAGAAACTTTGGTAATCACTTTCTCATTTTCAT
* *
1137508 ACGAAAACATCTTACCCTG-GGATTTTATAGATGG
66 GCGAAAACATCATACCCTGAGG-TTTTATAGATGG
* *
1137542 CCCAGAGGTTTTA
1 CCCGGAGGATTTA
1137555 CAAATCACTT
Statistics
Matches: 190, Mismatches: 20, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
98 2 0.01
99 188 0.99
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (99 bp):
CCCGGAGGATTTAATTTTCTTGAACATTAAATGAGAAACTTTGGTAATCACTTTCTCATTTTCAT
GCGAAAACATCATACCCTGAGGTTTTATAGATGG
Found at i:1137624 original size:20 final size:20
Alignment explanation
Indices: 1137596--1137694 Score: 126
Period size: 20 Copynumber: 5.0 Consensus size: 20
1137586 AAAACATCCC
* *
1137596 ACCCTGAGGTTTTACAGATG
1 ACCCGGAGGTTTTACAAATG
*
1137616 ACCCGGAGGTTTTATAAATG
1 ACCCGGAGGTTTTACAAATG
* * *
1137636 ACTCAGAGGTTTTACAAATC
1 ACCCGGAGGTTTTACAAATG
*
1137656 ACCCGGAGGATTTACAAATG
1 ACCCGGAGGTTTTACAAATG
*
1137676 ACCCGGAGGTTTTAAAAAT
1 ACCCGGAGGTTTTACAAAT
1137695 TTGTGGGAAA
Statistics
Matches: 66, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 66 1.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.27
Consensus pattern (20 bp):
ACCCGGAGGTTTTACAAATG
Found at i:1140665 original size:24 final size:23
Alignment explanation
Indices: 1140625--1140685 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 23
1140615 CTTGATTCAA
1140625 TTTCTTTTTTCTTC-TTTTTTCT
1 TTTCTTTTTTCTTCTTTTTTTCT
1140647 TCTTCTTTTCTTCTTCTTTTTTTCT
1 T-TTCTTTT-TTCTTCTTTTTTTCT
1140672 TTTCTCTTTTTCTT
1 TTTCT-TTTTTCTT
1140686 TGATAGATGA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
22 1 0.03
23 7 0.20
24 15 0.43
25 12 0.34
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (23 bp):
TTTCTTTTTTCTTCTTTTTTTCT
Found at i:1140686 original size:13 final size:13
Alignment explanation
Indices: 1140627--1140686 Score: 56
Period size: 13 Copynumber: 4.8 Consensus size: 13
1140617 TGATTCAATT
*
1140627 TCTTTTT-TCTTC
1 TCTTTTTCTTTTC
*
1140639 T-TTTTTCTTCT-
1 TCTTTTTCTTTTC
1140650 TC-TTTTCTTCTTC
1 TCTTTTTCTT-TTC
*
1140663 TTTTTTTCTTTTC
1 TCTTTTTCTTTTC
1140676 TCTTTTTCTTT
1 TCTTTTTCTTT
1140687 GATAGATGAG
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
11 13 0.34
12 4 0.11
13 14 0.37
14 7 0.18
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (13 bp):
TCTTTTTCTTTTC
Found at i:1147760 original size:3 final size:3
Alignment explanation
Indices: 1147754--1147813 Score: 79
Period size: 3 Copynumber: 20.7 Consensus size: 3
1147744 GTTTTTTTTG
* **
1147754 TAA TAA TAA TAA TAA T-A TGA TAA TAA TAA TTG TAA T-A TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1147800 TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TA
1147814 TAGTCTCGGA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
2 4 0.08
3 46 0.92
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:1147779 original size:20 final size:20
Alignment explanation
Indices: 1147754--1147810 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
1147744 GTTTTTTTTG
*
1147754 TAATAATAATAATAATATGA
1 TAATAATAATAATAATATAA
**
1147774 TAATAATAATTGTAATATAA
1 TAATAATAATAATAATATAA
1147794 TAATAATAATAATAATA
1 TAATAATAATAATAATA
1147811 ATATAGTCTC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (20 bp):
TAATAATAATAATAATATAA
Found at i:1148099 original size:25 final size:26
Alignment explanation
Indices: 1148071--1148120 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
1148061 ATTTGAGGAC
* *
1148071 TTATTTA-ATTTAAAAAATTAAATAA
1 TTATTTAGATTAAAAAAATAAAATAA
1148096 TTATTTAGATTAAAAAAATAAAATA
1 TTATTTAGATTAAAAAAATAAAATA
1148121 CAAACATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (26 bp):
TTATTTAGATTAAAAAAATAAAATAA
Found at i:1157376 original size:171 final size:173
Alignment explanation
Indices: 1157088--1157428 Score: 517
Period size: 171 Copynumber: 2.0 Consensus size: 173
1157078 GTTCGACTCG
* ****** *
1157088 AACTTGAAATCCTGAACTGAAGTTCATGAGCAGCTCGAAAAGGCTCGAAATGAATTTTTTTTTTC
1 AACTTGAAATCCTGAACTGAAGCTCAT-AGCAGCTCGAAAAGGCTCGAAATGAAAAAAAATATTC
*
1157153 TTAAACTTAACTCGATTGAAGCCTCAAACTCGAACCTGAACCTTAAATACATGAAAATCTTACTG
65 TTAAACTTAACTCGATTGAAGCATCAAACTCGAACCTGAACCTTAAATACATGAAAATCTTACTG
*
1157218 TATT-TTAAAAAAAAATCAATACATAAATGTTTATATTATTCTTA
130 TATTATT-AAAAAAAATCAATACAAAAATGTTTATATTATTCTTA
1157262 AACTTGAAATCCTGAACTGAAGCTCAT-G-AGCTCGAAAAGGCTCGAAATGAAAAAAAATATTCT
1 AACTTGAAATCCTGAACTGAAGCTCATAGCAGCTCGAAAAGGCTCGAAATGAAAAAAAATATTCT
* *
1157325 TAAACTTAACTCGATTGAAGCATCAAACTCGAACCTGAACTTTAAATACATGAAAATCTTATTGT
66 TAAACTTAACTCGATTGAAGCATCAAACTCGAACCTGAACCTTAAATACATGAAAATCTTACTGT
**
1157390 ATTATTTTAAAAAATCAATACAAAAATGTTTATATTATT
131 ATTATTAAAAAAAATCAATACAAAAATGTTTATATTATT
1157429 AATAATTTTT
Statistics
Matches: 152, Mismatches: 14, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
171 123 0.81
172 3 0.02
174 26 0.17
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (173 bp):
AACTTGAAATCCTGAACTGAAGCTCATAGCAGCTCGAAAAGGCTCGAAATGAAAAAAAATATTCT
TAAACTTAACTCGATTGAAGCATCAAACTCGAACCTGAACCTTAAATACATGAAAATCTTACTGT
ATTATTAAAAAAAATCAATACAAAAATGTTTATATTATTCTTA
Found at i:1162359 original size:26 final size:26
Alignment explanation
Indices: 1162321--1162386 Score: 78
Period size: 26 Copynumber: 2.4 Consensus size: 26
1162311 CATCCACCTG
1162321 ATCAGACCAGACCCAAAAATTTTACATC
1 ATCA-ACC-GACCCAAAAATTTTACATC
**
1162349 ATCAACCGACCTTAAAATTTTACATC
1 ATCAACCGACCCAAAAATTTTACATC
*
1162375 CTCAACCCGACC
1 ATCAA-CCGACC
1162387 TAAACCCAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 21 0.62
27 9 0.26
28 4 0.12
ACGTcount: A:0.38, C:0.33, G:0.06, T:0.23
Consensus pattern (26 bp):
ATCAACCGACCCAAAAATTTTACATC
Found at i:1162390 original size:26 final size:26
Alignment explanation
Indices: 1162336--1162387 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
1162326 ACCAGACCCA
1162336 AAAATTTTACATCATCAACCGACCTT
1 AAAATTTTACATCATCAACCGACCTT
*
1162362 AAAATTTTACATCCTCAACCCGACCT
1 AAAATTTTACATCATCAA-CCGACCT
1162388 AAACCCAACC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 17 0.71
27 7 0.29
ACGTcount: A:0.37, C:0.31, G:0.04, T:0.29
Consensus pattern (26 bp):
AAAATTTTACATCATCAACCGACCTT
Found at i:1162469 original size:18 final size:20
Alignment explanation
Indices: 1162436--1162479 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
1162426 ATCCCACTTG
*
1162436 AAATAATATATTTATT-AAA
1 AAATATTATATTTATTCAAA
*
1162455 AAATATTAT-TTTATTCAAT
1 AAATATTATATTTATTCAAA
1162474 AAATAT
1 AAATAT
1162480 AGGGATTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (20 bp):
AAATATTATATTTATTCAAA
Found at i:1164276 original size:6 final size:6
Alignment explanation
Indices: 1164259--1164292 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
1164249 ATAAGTCATA
* *
1164259 ATATAC ACATAC ATATAC ATGTAC ATATAC ATAT
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATAT
1164293 GAGTTGAAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.47, C:0.18, G:0.03, T:0.32
Consensus pattern (6 bp):
ATATAC
Found at i:1166625 original size:21 final size:21
Alignment explanation
Indices: 1166599--1166640 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
1166589 CTTATTAGGG
1166599 TTGATTTGAAATGTATAAAAT
1 TTGATTTGAAATGTATAAAAT
1166620 TTGATTTGAAATGTATAAAAT
1 TTGATTTGAAATGTATAAAAT
1166641 CTTCTTTCGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (21 bp):
TTGATTTGAAATGTATAAAAT
Found at i:1167351 original size:112 final size:112
Alignment explanation
Indices: 1167223--1167446 Score: 439
Period size: 112 Copynumber: 2.0 Consensus size: 112
1167213 GGCTGTTCTG
1167223 CAATTGCAGATTTCAGAAGCATTATAATATACATAATAATGTTGATAAACGCGTGCATATGCATC
1 CAATTGCAGATTTCAGAAGCATTATAATATACATAATAATGTTGATAAACGCGTGCATATGCATC
*
1167288 TACTAGATATGCTTGCCTACCAAAATCTATGCTGCAAATCTCATAAT
66 TACTACATATGCTTGCCTACCAAAATCTATGCTGCAAATCTCATAAT
1167335 CAATTGCAGATTTCAGAAGCATTATAATATACATAATAATGTTGATAAACGCGTGCATATGCATC
1 CAATTGCAGATTTCAGAAGCATTATAATATACATAATAATGTTGATAAACGCGTGCATATGCATC
1167400 TACTACATATGCTTGCCTACCAAAATCTATGCTGCAAATCTCATAAT
66 TACTACATATGCTTGCCTACCAAAATCTATGCTGCAAATCTCATAAT
1167447 TTTCAAACAA
Statistics
Matches: 111, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
112 111 1.00
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (112 bp):
CAATTGCAGATTTCAGAAGCATTATAATATACATAATAATGTTGATAAACGCGTGCATATGCATC
TACTACATATGCTTGCCTACCAAAATCTATGCTGCAAATCTCATAAT
Found at i:1168802 original size:21 final size:21
Alignment explanation
Indices: 1168773--1168825 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
1168763 TTCCAGTCGT
*
1168773 CTGTAACTCCTACTATTATTA
1 CTGTTACTCCTACTATTATTA
1168794 CTGTTACTCCTACTATTATTA
1 CTGTTACTCCTACTATTATTA
1168815 CTGTTACTCCT
1 CTGTTACTCCT
1168826 GTAATTGGCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.23, C:0.26, G:0.06, T:0.45
Consensus pattern (21 bp):
CTGTTACTCCTACTATTATTA
Done.