Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009574.1 Hibiscus syriacus cultivar Beakdansim tig00116939_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: 2686660
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 14
Found at i:1558407 original size:24 final size:24
Alignment explanation
Indices: 1558375--1558424 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
1558365 TTTTCTTACT
1558375 TTTTCTTAAAATGTTAACTTTTCC
1 TTTTCTTAAAATGTTAACTTTTCC
1558399 TTTTCTTAAAATGTTAACTTTTCC
1 TTTTCTTAAAATGTTAACTTTTCC
1558423 TT
1 TT
1558425 ACTTGTTTCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.24, C:0.16, G:0.04, T:0.56
Consensus pattern (24 bp):
TTTTCTTAAAATGTTAACTTTTCC
Found at i:1562174 original size:17 final size:18
Alignment explanation
Indices: 1562148--1562181 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
1562138 ATTAGCCCTT
*
1562148 ATTTATTTCAAT-TTTTA
1 ATTTAATTCAATATTTTA
1562165 ATTTAATTCAATATTTT
1 ATTTAATTCAATATTTT
1562182 TTATAATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTTAATTCAATATTTTA
Found at i:1565370 original size:103 final size:103
Alignment explanation
Indices: 1565222--1565562 Score: 439
Period size: 103 Copynumber: 3.3 Consensus size: 103
1565212 ATAGTTTCGG
* * * * * *
1565222 TACTACTTCATTATTTTGGGTTTGAGTATCGATGTCATTTGTGGTATCGATATCATTTTAACATT
1 TACTACTTCATTATTTTGGGTTTCAGTATCGATATCATATATGGTATCGATACCATTTTAGCATT
* *
1565287 CTATTTTGACAGTATCGATACTACCTCAGCAGTATTGA
66 ATATTTTGACAGTATCGGTACTACCTCAGCAGTATTGA
* * * * *
1565325 TACTGCTTCATTATTTTGGATTTCAGTATCGATACCATATATGGTATCAATACCATTTTAGTATT
1 TACTACTTCATTATTTTGGGTTTCAGTATCGATATCATATATGGTATCGATACCATTTTAGCATT
* * * * *
1565390 ATGTTTTGACAGTATTGGTACTTCCTCATCAGTATTGG
66 ATATTTTGACAGTATCGGTACTACCTCAGCAGTATTGA
* * * *
1565428 TACCACTTCATTGTTTTGGGTTCCAGTATCGATATCATATATGGTATCGACACCATTTTAGCATT
1 TACTACTTCATTATTTTGGGTTTCAGTATCGATATCATATATGGTATCGATACCATTTTAGCATT
* *
1565493 ATATTTTGACAGTATCGGTACTGCCTCAGCAGTATCGA
66 ATATTTTGACAGTATCGGTACTACCTCAGCAGTATTGA
* * *
1565531 TACTGCTTCATTATTTTGTGTTTCAATATCGA
1 TACTACTTCATTATTTTGGGTTTCAGTATCGA
1565563 AATATGTATT
Statistics
Matches: 199, Mismatches: 39, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
103 199 1.00
ACGTcount: A:0.25, C:0.17, G:0.16, T:0.42
Consensus pattern (103 bp):
TACTACTTCATTATTTTGGGTTTCAGTATCGATATCATATATGGTATCGATACCATTTTAGCATT
ATATTTTGACAGTATCGGTACTACCTCAGCAGTATTGA
Found at i:1565438 original size:20 final size:20
Alignment explanation
Indices: 1565399--1565438 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
1565389 TATGTTTTGA
**
1565399 CAGTATTGGTACTTCCTCAT
1 CAGTATTGGTACCACCTCAT
*
1565419 CAGTATTGGTACCACTTCAT
1 CAGTATTGGTACCACCTCAT
1565439 TGTTTTGGGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.38
Consensus pattern (20 bp):
CAGTATTGGTACCACCTCAT
Found at i:1565597 original size:20 final size:20
Alignment explanation
Indices: 1565574--1565612 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
1565564 ATATGTATTG
1565574 ATACTGATTTAACAGTATCT
1 ATACTGATTTAACAGTATCT
1565594 ATACTGATTTAACAGTATC
1 ATACTGATTTAACAGTATC
1565613 GGTACTGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.38
Consensus pattern (20 bp):
ATACTGATTTAACAGTATCT
Found at i:1565618 original size:20 final size:20
Alignment explanation
Indices: 1565568--1565619 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
1565558 ATCGAAATAT
*
1565568 GTATTGATACTGATTTAACA
1 GTATCGATACTGATTTAACA
*
1565588 GTATCTATACTGATTTAACA
1 GTATCGATACTGATTTAACA
*
1565608 GTATCGGTACTG
1 GTATCGATACTG
1565620 TTATAGCAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.38
Consensus pattern (20 bp):
GTATCGATACTGATTTAACA
Found at i:1566397 original size:30 final size:29
Alignment explanation
Indices: 1566352--1566414 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 29
1566342 GAGAGGGCCA
* *
1566352 AATTGGCCCATTAGGGCAACCAACTAATTT
1 AATTAGCCCATTAGGGCAACCAAATAA-TT
* *
1566382 AATTAGCCTATTAGGGCACCCAAATAATT
1 AATTAGCCCATTAGGGCAACCAAATAATT
1566411 AATT
1 AATT
1566415 TGGACTTTAC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 6 0.21
30 23 0.79
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.29
Consensus pattern (29 bp):
AATTAGCCCATTAGGGCAACCAAATAATT
Found at i:1566826 original size:103 final size:103
Alignment explanation
Indices: 1566678--1567021 Score: 447
Period size: 103 Copynumber: 3.3 Consensus size: 103
1566668 ATAGTTTCGG
* * * *
1566678 TACTACTTCATTATTTTGGGTTTGAGTATCGATATCATTTGTGGTATCGGTATCATTTTATCATT
1 TACTACTTCATTATTTTGGGTTTCAGTATCGATATCATATATGGTATCGGTACCATTTTATCATT
*
1566743 CTATTTTGACAGTATCGGTACTACCTCAGCAGTATTGA
66 ATATTTTGACAGTATCGGTACTACCTCAGCAGTATTGA
* * * *
1566781 TACTGCTTCATTATTTTGGATTTCAGTATCGATACCATATATGGTATCAGTACCATTTTAGT-AT
1 TACTACTTCATTATTTTGGGTTTCAGTATCGATATCATATATGGTATCGGTACCATTTTA-TCAT
* * * * * *
1566845 TATGTTTTTACAGTATTGGTACTTCCTCATCAGTATTGG
65 TATATTTTGACAGTATCGGTACTACCTCAGCAGTATTGA
* * ** *
1566884 TACCACTTCATTATTTTGGGTTCCAGTATCGATATCATATATGGTATCGACACCATTTTAGCATT
1 TACTACTTCATTATTTTGGGTTTCAGTATCGATATCATATATGGTATCGGTACCATTTTATCATT
* **
1566949 ATATTTTGACAGTATCGGTACTGCCTCAGCAGTAACGA
66 ATATTTTGACAGTATCGGTACTACCTCAGCAGTATTGA
* *
1566987 TACTACTTCATTATTTTGTGTTTCAATATCGATAT
1 TACTACTTCATTATTTTGGGTTTCAGTATCGATAT
1567022 ATGTATCGAT
Statistics
Matches: 203, Mismatches: 36, Indels: 4
0.84 0.15 0.02
Matches are distributed among these distances:
103 202 1.00
104 1 0.00
ACGTcount: A:0.25, C:0.17, G:0.16, T:0.42
Consensus pattern (103 bp):
TACTACTTCATTATTTTGGGTTTCAGTATCGATATCATATATGGTATCGGTACCATTTTATCATT
ATATTTTGACAGTATCGGTACTACCTCAGCAGTATTGA
Found at i:1566894 original size:20 final size:20
Alignment explanation
Indices: 1566855--1566894 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
1566845 TATGTTTTTA
**
1566855 CAGTATTGGTACTTCCTCAT
1 CAGTATTGGTACCACCTCAT
*
1566875 CAGTATTGGTACCACTTCAT
1 CAGTATTGGTACCACCTCAT
1566895 TATTTTGGGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.38
Consensus pattern (20 bp):
CAGTATTGGTACCACCTCAT
Found at i:1568271 original size:102 final size:103
Alignment explanation
Indices: 1568095--1568326 Score: 281
Period size: 102 Copynumber: 2.3 Consensus size: 103
1568085 GCTTGACCGT
* * **
1568095 TGTTTTGAAAGTATCGGTA-TTGCCTCAGCAATATCGGTACTACTTCACTATTTTGGGTTATAGT
1 TGTTTTGACAGTATCGGTACTT-CCTCAGCAATATCGATACTACTTCACTATTTTGGGTTATACA
* * *
1568159 GTCAATATCATATATGGTATTGGTACCA-TTTAGCATTC
65 ATCAATATCATATATGGTATCGATACCATTTTAGCATTC
* *
1568197 TGTTTTGACAGTATCGGTACTTCCTCAGCAGTATCGATACTACTTCATTATTTTGGGTT-TCACA
1 TGTTTTGACAGTATCGGTACTTCCTCAGCAATATCGATACTACTTCACTATTTTGGGTTAT-ACA
* * *
1568261 ATCGATATCATTTGTGGTATCGATACCATTTTAGCATTC
65 ATCAATATCATATATGGTATCGATACCATTTTAGCATTC
* * *
1568300 TATTTTTGACAGTATCGCTACTACCTC
1 T-GTTTTGACAGTATCGGTACTTCCTC
1568327 TTCATTATTT
Statistics
Matches: 111, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
101 1 0.01
102 75 0.68
103 13 0.12
104 22 0.20
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.41
Consensus pattern (103 bp):
TGTTTTGACAGTATCGGTACTTCCTCAGCAATATCGATACTACTTCACTATTTTGGGTTATACAA
TCAATATCATATATGGTATCGATACCATTTTAGCATTC
Found at i:1568471 original size:190 final size:189
Alignment explanation
Indices: 1568137--1568482 Score: 512
Period size: 190 Copynumber: 1.8 Consensus size: 189
1568127 ATCGGTACTA
* * * *
1568137 CTTCACTATTTTGGGTTATAGTGTCAATATCATATATGGTATTGGTACCATTTAGCATTCTGTTT
1 CTTCACTATTTTGGATTATAGTATCAATATCATATATGGTATCGGTACCATTTAGCATTATGTTT
* *
1568202 TGACAGTATCGGTACTTCCTCAGCAGTATCGATACTACTTCATTATTTTGGGTTTCACAATCGAT
66 TGACAGTATCGGTACTTCCTCAGCAGTATCGACACCACTTCATTATTTTGGGTTTCACAATCGAT
* *
1568267 ATCATTTGTGGTATCGATACCATTTTAGCATTCTATTTTTGACAGTATCGCTACTACCT
131 ATCATATATGGTATCGATACCATTTTAGCATTCTATTTTTGACAGTATCGCTACTACCT
* * * *
1568326 CTTCATTATTTTGGATTTTAGTATCGATATCATATATGGTATCGGTACCATTTTAGTATTATGTT
1 CTTCACTATTTTGGATTATAGTATCAATATCATATATGGTATCGGTACCA-TTTAGCATTATGTT
* * * * * **
1568391 TTGATAGTATTGGTACTTCCTCATCAGTATTGGCACCACTTCATTATTTTGGGTTTCAGTATCGA
65 TTGACAGTATCGGTACTTCCTCAGCAGTATCGACACCACTTCATTATTTTGGGTTTCACAATCGA
1568456 TATCATATATGGTATCGATACCATTTT
130 TATCATATATGGTATCGATACCATTTT
1568483 TGTATTTTGT
Statistics
Matches: 137, Mismatches: 19, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
189 44 0.32
190 93 0.68
ACGTcount: A:0.24, C:0.17, G:0.16, T:0.43
Consensus pattern (189 bp):
CTTCACTATTTTGGATTATAGTATCAATATCATATATGGTATCGGTACCATTTAGCATTATGTTT
TGACAGTATCGGTACTTCCTCAGCAGTATCGACACCACTTCATTATTTTGGGTTTCACAATCGAT
ATCATATATGGTATCGATACCATTTTAGCATTCTATTTTTGACAGTATCGCTACTACCT
Found at i:1568505 original size:103 final size:103
Alignment explanation
Indices: 1568326--1568561 Score: 330
Period size: 103 Copynumber: 2.3 Consensus size: 103
1568316 GCTACTACCT
* * *
1568326 CTTCATTATTTTGGATTTTAGTATCGATATCATATATGGTATCGGTACCATTTTAGTATTATGTT
1 CTTCATTATTTTGGGTTTCAGTATCGATATCATATATGGTATCGATACCATTTTAGTATTATGTT
* ** * *
1568391 TTGATAGTATTGGTACTTCCTCA-TCAGTATTGGCACCA
66 TTGAGAGTATTGGTACAACCTCAGT-AGTATCGACACCA
* *
1568429 CTTCATTATTTTGGGTTTCAGTATCGATATCATATATGGTATCGATACCATTTTTGTATTTTGTT
1 CTTCATTATTTTGGGTTTCAGTATCGATATCATATATGGTATCGATACCATTTTAGTATTATGTT
* **
1568494 TTGAGAGTATTGGTACAACCTCAGTAGTATCGATACTG
66 TTGAGAGTATTGGTACAACCTCAGTAGTATCGACACCA
*
1568532 CTTCATTATTTTGGGTTTCAATATCGATAT
1 CTTCATTATTTTGGGTTTCAGTATCGATAT
1568562 ATGTATCAAT
Statistics
Matches: 118, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
103 117 0.99
104 1 0.01
ACGTcount: A:0.24, C:0.14, G:0.17, T:0.45
Consensus pattern (103 bp):
CTTCATTATTTTGGGTTTCAGTATCGATATCATATATGGTATCGATACCATTTTAGTATTATGTT
TTGAGAGTATTGGTACAACCTCAGTAGTATCGACACCA
Found at i:1568593 original size:20 final size:20
Alignment explanation
Indices: 1568564--1568606 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
1568554 ATCGATATAT
1568564 GTATCAATACTGATTTAACA
1 GTATCAATACTGATTTAACA
*
1568584 GTATCTATACTGATTTAACA
1 GTATCAATACTGATTTAACA
1568604 GTA
1 GTA
1568607 CGAGTACTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (20 bp):
GTATCAATACTGATTTAACA
Found at i:1568614 original size:20 final size:20
Alignment explanation
Indices: 1568564--1568629 Score: 73
Period size: 20 Copynumber: 3.3 Consensus size: 20
1568554 ATCGATATAT
*
1568564 GTATCAATACTGATTTAACA
1 GTATCGATACTGATTTAACA
*
1568584 GTATCTATACTGATTTAACA
1 GTATCGATACTGATTTAACA
*
1568604 GTA-CGAGTACTG-TTATAGCA
1 GTATCGA-TACTGATT-TAACA
1568624 GTATCG
1 GTATCG
1568630 GCACAACAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
19 4 0.10
20 34 0.85
21 2 0.05
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (20 bp):
GTATCGATACTGATTTAACA
Found at i:1569844 original size:103 final size:103
Alignment explanation
Indices: 1569665--1569943 Score: 353
Period size: 103 Copynumber: 2.7 Consensus size: 103
1569655 TTGACCGTTA
** * * *
1569665 TTTTGACAGTATCAATACTGCCTAACCAGTATCGGTACTACTTCATTATTTTGGGTTAT-AGTAT
1 TTTTGACAGTATCGGTACTTCCTCAGCAGTATCGGTACTACTTCATTATTTTGGGTT-TCAGTAT
* * * *
1569729 CGATAACATATATGGTATTGGTACCATTTTAGCATTCTG
65 CGATACCATATATGGTATCGATACCATTTTAGCATTATG
* * * * * *
1569768 TTTTGATAGTATCGGTACTTTCTCAGCAGTACCGATACTGCTTCATTATTTTGGATTTCAGTATC
1 TTTTGACAGTATCGGTACTTCCTCAGCAGTATCGGTACTACTTCATTATTTTGGGTTTCAGTATC
*
1569833 GATACCATATATGGTATCGATACCATTTTAGTATTATG
66 GATACCATATATGGTATCGATACCATTTTAGCATTATG
* * * * *
1569871 TTTTGACAGTATTGGTACTTCCTCATCAGTATTGGTACCACTTCATTGTTTTGGGTTTCAGTATC
1 TTTTGACAGTATCGGTACTTCCTCAGCAGTATCGGTACTACTTCATTATTTTGGGTTTCAGTATC
1569936 GATACCAT
66 GATACCAT
1569944 TTTTGCATTC
Statistics
Matches: 148, Mismatches: 27, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
102 1 0.01
103 147 0.99
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.41
Consensus pattern (103 bp):
TTTTGACAGTATCGGTACTTCCTCAGCAGTATCGGTACTACTTCATTATTTTGGGTTTCAGTATC
GATACCATATATGGTATCGATACCATTTTAGCATTATG
Found at i:1569916 original size:20 final size:20
Alignment explanation
Indices: 1569877--1569916 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
1569867 TATGTTTTGA
**
1569877 CAGTATTGGTACTTCCTCAT
1 CAGTATTGGTACCACCTCAT
*
1569897 CAGTATTGGTACCACTTCAT
1 CAGTATTGGTACCACCTCAT
1569917 TGTTTTGGGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.38
Consensus pattern (20 bp):
CAGTATTGGTACCACCTCAT
Found at i:1570022 original size:86 final size:85
Alignment explanation
Indices: 1569847--1570025 Score: 241
Period size: 86 Copynumber: 2.1 Consensus size: 85
1569837 CCATATATGG
* * * * *
1569847 TATCGATACCATTTTAGTATTATGTTTTGACAGTATTGGTACTTCCTCATCAGTATTGGTACCAC
1 TATCGATACCATTTTAGCATTATGTTTTGACAGTATTGGTACTGCCTCAGCAATATCGGTACCAC
* *
1569912 TTCATTGTTTTGGGTTTCAG
66 TTCATTATTTTGGGTTTCAA
* * * **
1569932 TATCGATACCATTTTTGCATTCTGTTTTGAGAGTATTGGTAACTGCCTCAGCAATATCGGTACTG
1 TATCGATACCATTTTAGCATTATGTTTTGACAGTATTGGT-ACTGCCTCAGCAATATCGGTACCA
1569997 CTTCATTATTTTGGGTTTCAA
65 CTTCATTATTTTGGGTTTCAA
1570018 TATCGATA
1 TATCGATA
1570026 TATGTATTGA
Statistics
Matches: 81, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
85 36 0.44
86 45 0.56
ACGTcount: A:0.22, C:0.17, G:0.18, T:0.43
Consensus pattern (85 bp):
TATCGATACCATTTTAGCATTATGTTTTGACAGTATTGGTACTGCCTCAGCAATATCGGTACCAC
TTCATTATTTTGGGTTTCAA
Found at i:1570080 original size:20 final size:20
Alignment explanation
Indices: 1570035--1570073 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
1570025 ATATGTATTG
*
1570035 ATACTGATTTAACAGTATCT
1 ATACTGATTTAACAATATCT
1570055 ATACTGATTTAACAATATC
1 ATACTGATTTAACAATATC
1570074 AGTACTGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (20 bp):
ATACTGATTTAACAATATCT
Found at i:1571455 original size:103 final size:103
Alignment explanation
Indices: 1571141--1571626 Score: 570
Period size: 103 Copynumber: 4.7 Consensus size: 103
1571131 TTGACCGTTG
* * *
1571141 TTTGACACTATTGGTACTGCCTCACCAGTATCTG-TACTACTTCATTATTTTGGGTTTTA-TAAT
1 TTTGACAGTATTGGTACTGCCTCAGCAGTATC-GATACTACTTCATTATTTTGGGTTTCAGT-AT
* * *
1571204 CGATATCATATATGGTATTGGTACCATTTTAGCATTTTGT
64 CGATATCATATATGGTATCGATACCATTTTAGCATTCTGT
* * * * **
1571244 GTTGACATTATCGGTACTTCCTCAGCAGTATCGATACTACTTCATTATTTTGGGTTT-AGGGTCG
1 TTTGACAGTATTGGTACTGCCTCAGCAGTATCGATACTACTTCATTATTTTGGGTTTCAGTATCG
* * *
1571308 ATATCATTTGTGGTATCGATACCATTTAAGCATTCTGT
66 ATATCATATATGGTATCGATACCATTTTAGCATTCTGT
* * * *
1571346 TTTGACAGT-TTCAGTACTGCCACAGCAGTATCGATACTGCTTCATTATTTTGGATTTCAGTATC
1 TTTGACAGTATT-GGTACTGCCTCAGCAGTATCGATACTACTTCATTATTTTGGGTTTCAGTATC
* *
1571410 GATATCATATATGGTATC-AGTACCATTTTAGTATTATGT
65 GATATCATATATGGTATCGA-TACCATTTTAGCATTCTGT
* * * * * * *
1571449 TTTGACAGTATTGGTACTTCCTTATCAGTATTGGTACCACTTCATTGTTTTGGGTTTCAGTATCG
1 TTTGACAGTATTGGTACTGCCTCAGCAGTATCGATACTACTTCATTATTTTGGGTTTCAGTATCG
* * *
1571514 ATATCATATAGGGTATCGATACCATTTTTGAATTCTGT
66 ATATCATATATGGTATCGATACCATTTTAGCATTCTGT
* * * * *
1571552 TTTGAGAGTATTGGTACTGCCTCAGTAGTATCGATACTGCTTCATTATTTTGGATTTCAATATCG
1 TTTGACAGTATTGGTACTGCCTCAGCAGTATCGATACTACTTCATTATTTTGGGTTTCAGTATCG
1571617 ATAT-ATATAT
66 ATATCATATAT
1571627 ATATATCAAT
Statistics
Matches: 320, Mismatches: 56, Indels: 15
0.82 0.14 0.04
Matches are distributed among these distances:
101 1 0.00
102 90 0.28
103 226 0.71
104 3 0.01
ACGTcount: A:0.24, C:0.16, G:0.17, T:0.42
Consensus pattern (103 bp):
TTTGACAGTATTGGTACTGCCTCAGCAGTATCGATACTACTTCATTATTTTGGGTTTCAGTATCG
ATATCATATATGGTATCGATACCATTTTAGCATTCTGT
Found at i:1571493 original size:205 final size:205
Alignment explanation
Indices: 1571141--1571626 Score: 622
Period size: 205 Copynumber: 2.4 Consensus size: 205
1571131 TTGACCGTTG
* * * * * *
1571141 TTTGACACTATTGGTACTGCCTCACCAGTATCTG-TACTACTTCATTATTTTGGGTTTTATAATC
1 TTTGACAGTATTAGTACTGCCTCAGCAGTATC-GATACTGCTTCATTATTTTGGATTTCAT-ATC
** * *
1571205 GATATCATATATGGTATTGGTACCATTTTAGCATTTTGTGTTGACATTATCGGTACTTCCTCAGC
64 GATATCATATATGGTATCAGTACCATTTTAGCATTATGTGTTGACAGTATCGGTACTTCCTCAGC
* * *
1571270 AGTATCGATACTACTTCATTATTTTGGGTTT-AGGGTCGATATCAT-TTGTGGTATCGATACCAT
129 AGTATCGATACCACTTCATTATTTTGGGTTTCAGGATCGATATCATATAG-GGTATCGATACCAT
*
1571333 TTAAGCATTCTGT
193 TTAAGAATTCTGT
*
1571346 TTTGACAGT-TTCAGTACTGCCACAGCAGTATCGATACTGCTTCATTATTTTGGATTTCAGTATC
1 TTTGACAGTATT-AGTACTGCCTCAGCAGTATCGATACTGCTTCATTATTTTGGATTTCA-TATC
* * * * *
1571410 GATATCATATATGGTATCAGTACCATTTTAGTATTATGTTTTGACAGTATTGGTACTTCCTTATC
64 GATATCATATATGGTATCAGTACCATTTTAGCATTATGTGTTGACAGTATCGGTACTTCCTCAGC
* * * *
1571475 AGTATTGGTACCACTTCATTGTTTTGGGTTTCAGTATCGATATCATATAGGGTATCGATACCATT
129 AGTATCGATACCACTTCATTATTTTGGGTTTCAGGATCGATATCATATAGGGTATCGATACCATT
**
1571540 TTTGAATTCTGT
194 TAAGAATTCTGT
* * *
1571552 TTTGAGAGTATTGGTACTGCCTCAGTAGTATCGATACTGCTTCATTATTTTGGATTTCAATATCG
1 TTTGACAGTATTAGTACTGCCTCAGCAGTATCGATACTGCTTCATTATTTTGGATTTC-ATATCG
1571617 ATAT-ATATAT
65 ATATCATATAT
1571627 ATATATCAAT
Statistics
Matches: 244, Mismatches: 30, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
204 3 0.01
205 139 0.57
206 97 0.40
207 5 0.02
ACGTcount: A:0.24, C:0.16, G:0.17, T:0.42
Consensus pattern (205 bp):
TTTGACAGTATTAGTACTGCCTCAGCAGTATCGATACTGCTTCATTATTTTGGATTTCATATCGA
TATCATATATGGTATCAGTACCATTTTAGCATTATGTGTTGACAGTATCGGTACTTCCTCAGCAG
TATCGATACCACTTCATTATTTTGGGTTTCAGGATCGATATCATATAGGGTATCGATACCATTTA
AGAATTCTGT
Found at i:1571658 original size:20 final size:20
Alignment explanation
Indices: 1571630--1571673 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
1571620 TATATATATA
*
1571630 TATCAATACTGATTTAACAG
1 TATCAATACTAATTTAACAG
*
1571650 TATCTATACTAATTTAACAG
1 TATCAATACTAATTTAACAG
1571670 TATC
1 TATC
1571674 GGTATTGTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.39, C:0.16, G:0.07, T:0.39
Consensus pattern (20 bp):
TATCAATACTAATTTAACAG
Found at i:1573057 original size:103 final size:103
Alignment explanation
Indices: 1572763--1573222 Score: 534
Period size: 103 Copynumber: 4.5 Consensus size: 103
1572753 TTGGTACTTT
* * * *
1572763 CTCACCAGTATCTG-TACAACTTCATTATTTTGGGTTTTAGAATCGATATCATATATGGTATTCG
1 CTCAGCAGTATC-GATACTACTTCATTATTTTGGGTTTCAGTATCGATATCATATATGGTA-TCG
* * *
1572827 -TACCATTTTAGCATTTTGTGTTGACA-TTATCGGTACTTC
64 ATACCATTTTAGCATTCTGTTTTGACAGTT-TCGGTACTGC
* * * * *
1572866 CTCAGCAGTATCGATACTACTTCATTATTTTGGGTTT-AGTGTCGATAACATTTGTGGTATCAAT
1 CTCAGCAGTATCGATACTACTTCATTATTTTGGGTTTCAGTATCGATATCATATATGGTATCGAT
*
1572930 ACCATTTTAGCATTCTGTTTTGACAGTTTCAGTACTGC
66 ACCATTTTAGCATTCTGTTTTGACAGTTTCGGTACTGC
* * *
1572968 CACAGCAGTATCGATACTGCTTCATTATTTTGGATTTCAGTATCGATATCATATATGGTATCGAT
1 CTCAGCAGTATCGATACTACTTCATTATTTTGGGTTTCAGTATCGATATCATATATGGTATCGAT
* * *
1573033 ACCATTTTAGTATTATGTTTTGACAGTATT-GGTACTTC
66 ACCATTTTAGCATTCTGTTTTGACAGT-TTCGGTACTGC
* * * * * *
1573071 CTTATCAGTATTGGTACCACTTCATTGTTTTGGGTTTCAGTATCGATATCATATATGGTATCGAT
1 CTCAGCAGTATCGATACTACTTCATTATTTTGGGTTTCAGTATCGATATCATATATGGTATCGAT
* * * * *
1573136 ACCATTTTTGAATTCTGTTTTGAGAGTATCGGTACTGA
66 ACCATTTTAGCATTCTGTTTTGACAGTTTCGGTACTGC
* * * * *
1573174 CTCAGTAGTATAGATACTGCTTCATTATTTTGGATTTCAATATCGATAT
1 CTCAGCAGTATCGATACTACTTCATTATTTTGGGTTTCAGTATCGATAT
1573223 ATGTATCGAT
Statistics
Matches: 301, Mismatches: 50, Indels: 12
0.83 0.14 0.03
Matches are distributed among these distances:
101 2 0.01
102 85 0.28
103 212 0.70
104 2 0.01
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.42
Consensus pattern (103 bp):
CTCAGCAGTATCGATACTACTTCATTATTTTGGGTTTCAGTATCGATATCATATATGGTATCGAT
ACCATTTTAGCATTCTGTTTTGACAGTTTCGGTACTGC
Found at i:1573095 original size:205 final size:206
Alignment explanation
Indices: 1572782--1573222 Score: 598
Period size: 205 Copynumber: 2.1 Consensus size: 206
1572772 ATCTGTACAA
* * * *
1572782 CTTCATTATTTTGGGTTTTAGAATCGATATCATATATGGTATTCGTACCATTTTAGCATTTTGTG
1 CTTCATTATTTTGGATTTCAGTATCGATATCATATATGGTATTCGTACCATTTTAGCATTATGTG
* * *
1572847 TTGACATTATCGGTACTTCCTCAGCAGTATCGATACTACTTCATTATTTTGGGTTT-AGTGTCGA
66 TTGACAGTATCGGTACTTCCTCAGCAGTATCGATACCACTTCATTATTTTGGGTTTCAGTATCGA
* * * * *
1572911 TAACATTTGTGGTATCAATACCATTTTAGCATTCTGTTTTGACAGTTTCAGTACTGCCACAGCAG
131 TAACATATATGGTATCAATACCATTTTAGAATTCTGTTTTGACAGTATCAGTACTGACACAGCAG
*
1572976 TATCGATACTG
196 TATAGATACTG
*
1572987 CTTCATTATTTTGGATTTCAGTATCGATATCATATATGGTA-TCGATACCATTTTAGTATTATGT
1 CTTCATTATTTTGGATTTCAGTATCGATATCATATATGGTATTCG-TACCATTTTAGCATTATGT
* * * * * * *
1573051 TTTGACAGTATTGGTACTTCCTTATCAGTATTGGTACCACTTCATTGTTTTGGGTTTCAGTATCG
65 GTTGACAGTATCGGTACTTCCTCAGCAGTATCGATACCACTTCATTATTTTGGGTTTCAGTATCG
* * * * * * *
1573116 ATATCATATATGGTATCGATACCATTTTTGAATTCTGTTTTGAGAGTATCGGTACTGACTCAGTA
130 ATAACATATATGGTATCAATACCATTTTAGAATTCTGTTTTGACAGTATCAGTACTGACACAGCA
1573181 GTATAGATACTG
195 GTATAGATACTG
*
1573193 CTTCATTATTTTGGATTTCAATATCGATAT
1 CTTCATTATTTTGGATTTCAGTATCGATAT
1573223 ATGTATCGAT
Statistics
Matches: 205, Mismatches: 29, Indels: 3
0.86 0.12 0.01
Matches are distributed among these distances:
204 3 0.01
205 103 0.50
206 99 0.48
ACGTcount: A:0.24, C:0.15, G:0.17, T:0.43
Consensus pattern (206 bp):
CTTCATTATTTTGGATTTCAGTATCGATATCATATATGGTATTCGTACCATTTTAGCATTATGTG
TTGACAGTATCGGTACTTCCTCAGCAGTATCGATACCACTTCATTATTTTGGGTTTCAGTATCGA
TAACATATATGGTATCAATACCATTTTAGAATTCTGTTTTGACAGTATCAGTACTGACACAGCAG
TATAGATACTG
Found at i:1574632 original size:103 final size:103
Alignment explanation
Indices: 1574331--1574798 Score: 532
Period size: 103 Copynumber: 4.6 Consensus size: 103
1574321 TGACACTATT
* * *
1574331 GGTACTGCCTCACCAGTATCTG-TACTACTTCATTATTTTGGGTTTTAGAATCGATATCATATAT
1 GGTACTGCCTCAGCAGTATC-GATACTACTTCATTATTTTGGGTTTCAGTATCGATATCATATAT
* * * *
1574395 GGTATTGGTACCATTTTAGCATTTTGTGTTGACA-TTATC
65 GGTATCGATACCATTTTAGCATTCTGTTTTGACAGTT-TC
* * * * *
1574434 GGTACTTCCTCAGCAGTATCGATACTACTTCATTATTTTGGGTTT-AGTGTCAATATCATTTGTG
1 GGTACTGCCTCAGCAGTATCGATACTACTTCATTATTTTGGGTTTCAGTATCGATATCATATATG
*
1574498 GTATTGATACCATTTTAGCATTCTGTTTTGACAGTTTC
66 GTATCGATACCATTTTAGCATTCTGTTTTGACAGTTTC
* * * * * *
1574536 AGTACTGCCACAACAGTATCGATACTGCTTCATTATTTTGGATTTCAGTATCAATATCATATATG
1 GGTACTGCCTCAGCAGTATCGATACTACTTCATTATTTTGGGTTTCAGTATCGATATCATATATG
* *
1574601 GTATC-AGTACCATTTTAGTATTATGTTTTGACAGTATT-
66 GTATCGA-TACCATTTTAGCATTCTGTTTTGACAGT-TTC
* * * * * * * *
1574639 GGTACTTCCTTATCAGTATTGGTACAACTTCATTGTTTTGGGTTTCAGTATCGATATCATATAAG
1 GGTACTGCCTCAGCAGTATCGATACTACTTCATTATTTTGGGTTTCAGTATCGATATCATATATG
* * * *
1574704 GTATCGATACCATTTTTGAATTCTGTTTTGAGAGTATC
66 GTATCGATACCATTTTAGCATTCTGTTTTGACAGTTTC
* * * *
1574742 GGTACTGCCTCAGTAGTATCGATAATGCTTCATTATTTTGGGTTTCAATATCGATAT
1 GGTACTGCCTCAGCAGTATCGATACTACTTCATTATTTTGGGTTTCAGTATCGATAT
1574799 ATGTATCGAT
Statistics
Matches: 307, Mismatches: 51, Indels: 14
0.83 0.14 0.04
Matches are distributed among these distances:
102 88 0.29
103 216 0.70
104 3 0.01
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.42
Consensus pattern (103 bp):
GGTACTGCCTCAGCAGTATCGATACTACTTCATTATTTTGGGTTTCAGTATCGATATCATATATG
GTATCGATACCATTTTAGCATTCTGTTTTGACAGTTTC
Found at i:1574671 original size:205 final size:206
Alignment explanation
Indices: 1574332--1574798 Score: 596
Period size: 205 Copynumber: 2.3 Consensus size: 206
1574322 GACACTATTG
* * * *
1574332 GTACTGCCTCACCAGTATCTG-TACTACTTCATTATTTTGGGTTTTAGAATCGATATCATATATG
1 GTACTGCCTCAACAGTATC-GATACTGCTTCATTATTTTGGGTTTCAGTATCGATATCATATATG
** * * *
1574396 GTATTGGTACCATTTTAGCATTTTGTGTTGACATTATCGGTACTTCCTCAGCAGTATCGATACTA
65 GTATCAGTACCATTTTAGCATTATGTGTTGACAGTATCGGTACTTCCTCAGCAGTATCGATACAA
* * ** * *
1574461 CTTCATTATTTTGGGTTT-AGTGTCAATATCATTTGTGGTATTGATACCATTTTAGCATTCTGTT
130 CTTCATTATTTTGGGTTTCAGTATCAATATCATATAAGGTATCGATACCATTTTAGAATTCTGTT
*
1574525 TTGACAGTTTCA
195 TTGACAGTATCA
* * *
1574537 GTACTGCCACAACAGTATCGATACTGCTTCATTATTTTGGATTTCAGTATCAATATCATATATGG
1 GTACTGCCTCAACAGTATCGATACTGCTTCATTATTTTGGGTTTCAGTATCGATATCATATATGG
* * * * * * *
1574602 TATCAGTACCATTTTAGTATTATGTTTTGACAGTATTGGTACTTCCTTATCAGTATTGGTACAAC
66 TATCAGTACCATTTTAGCATTATGTGTTGACAGTATCGGTACTTCCTCAGCAGTATCGATACAAC
* * *
1574667 TTCATTGTTTTGGGTTTCAGTATCGATATCATATAAGGTATCGATACCATTTTTGAATTCTGTTT
131 TTCATTATTTTGGGTTTCAGTATCAATATCATATAAGGTATCGATACCATTTTAGAATTCTGTTT
* *
1574732 TGAGAGTATCG
196 TGACAGTATCA
** * *
1574743 GTACTGCCTCAGTAGTATCGATAATGCTTCATTATTTTGGGTTTCAATATCGATAT
1 GTACTGCCTCAACAGTATCGATACTGCTTCATTATTTTGGGTTTCAGTATCGATAT
1574799 ATGTATCGAT
Statistics
Matches: 222, Mismatches: 38, Indels: 3
0.84 0.14 0.01
Matches are distributed among these distances:
204 1 0.00
205 125 0.56
206 96 0.43
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.42
Consensus pattern (206 bp):
GTACTGCCTCAACAGTATCGATACTGCTTCATTATTTTGGGTTTCAGTATCGATATCATATATGG
TATCAGTACCATTTTAGCATTATGTGTTGACAGTATCGGTACTTCCTCAGCAGTATCGATACAAC
TTCATTATTTTGGGTTTCAGTATCAATATCATATAAGGTATCGATACCATTTTAGAATTCTGTTT
TGACAGTATCA
Found at i:1576019 original size:102 final size:103
Alignment explanation
Indices: 1575842--1576322 Score: 639
Period size: 102 Copynumber: 4.7 Consensus size: 103
1575832 GCTTGACCGT
* * * * *
1575842 TGTTTTGATAGTATTGGTACTGCCTCAGCAATATCGGTACTACTTCATTATTTTGGGTTTTAGTA
1 TGTTTTGACAGTATCGGTACTGCCTCAGCAGTATCGATACTACTTCATTATTTTGGGTTTCAGTA
* * *
1575907 TCAATATCATAAATGGTATCAGTATCATTTTAGCATTC
66 TCGATATCATATATGGTATCAGTACCATTTTAGCATTC
* *
1575945 TGTTTTGACAGTATCGGTACTTCCTTA-CAGTATCGATACTACTTCATTATTTTGGGTTTCAGTA
1 TGTTTTGACAGTATCGGTACTGCCTCAGCAGTATCGATACTACTTCATTATTTTGGGTTTCAGTA
**
1576009 TCGATATCATATATGGTATTGGTACCATTTTAGCATTC
66 TCGATATCATATATGGTATCAGTACCATTTTAGCATTC
* * * *
1576047 TGTTTTGATAGTATTGGTACTGCCTCAGCAGTAGCGA-ACTACTTCATTATTTTGGGTTTCAGTG
1 TGTTTTGACAGTATCGGTACTGCCTCAGCAGTATCGATACTACTTCATTATTTTGGGTTTCAGTA
* * *
1576111 TCGATATCATATATGGTATCAGTATCTTTTTAGCATTA
66 TCGATATCATATATGGTATCAGTACCATTTTAGCATTC
* * * * *
1576149 TGTTTTGACAATATCGGTACTTCCTCAGTAGTATC-AGTACTACTTCATTATATTT-TGTTTCAA
1 TGTTTTGACAGTATCGGTACTGCCTCAGCAGTATCGA-TACTACTTCATTAT-TTTGGGTTTCAG
*
1576212 TATCGATATCTTATATGGTATC-GATACCATTTTAGCATTC
64 TATCGATATCATATATGGTATCAG-TACCATTTTAGCATTC
* * * *
1576252 TGTTTTGACAGTATCGATACTGCCTCAGCAATATCGGTACTGCTTCATTATTTTGGGTTTCAGTA
1 TGTTTTGACAGTATCGGTACTGCCTCAGCAGTATCGATACTACTTCATTATTTTGGGTTTCAGTA
1576317 TCGATA
66 TCGATA
1576323 CTGATTTAAC
Statistics
Matches: 326, Mismatches: 45, Indels: 14
0.85 0.12 0.04
Matches are distributed among these distances:
101 1 0.00
102 182 0.56
103 140 0.43
104 3 0.01
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.42
Consensus pattern (103 bp):
TGTTTTGACAGTATCGGTACTGCCTCAGCAGTATCGATACTACTTCATTATTTTGGGTTTCAGTA
TCGATATCATATATGGTATCAGTACCATTTTAGCATTC
Found at i:1576229 original size:205 final size:205
Alignment explanation
Indices: 1575842--1576322 Score: 725
Period size: 205 Copynumber: 2.3 Consensus size: 205
1575832 GCTTGACCGT
*
1575842 TGTTTTGATAGTATTGGTACTGCCTCAGCAATATCGGTACTACTTCATTATTTTGGGTTTTAGTA
1 TGTTTTGATAGTATTGGTACTGCCTCAGCAATATCGGTACTACTTCATTATTTTGGGTTTCAGTA
* * * *
1575907 TCAATATCATAAATGGTATCAGTATCATTTTAGCATTCTGTTTTGACAGTATCGGTACTTCCTTA
66 TCGATATCATAAATGGTATCAGTATCATTTTAGCATTATGTTTTGACAATATCGGTACTTCCTCA
* * *
1575972 CAGTATCGATACTACTTCATTATTTTGGGTTTCAGTATCGATATCATATATGGTATTGGTACCAT
131 CAGTATCGATACTACTTCATTATTTTGGGTTTCAATATCGATATCATATATGGTATCGATACCAT
1576037 TTTAGCATTC
196 TTTAGCATTC
* * * *
1576047 TGTTTTGATAGTATTGGTACTGCCTCAGCAGTAGC-GAACTACTTCATTATTTTGGGTTTCAGTG
1 TGTTTTGATAGTATTGGTACTGCCTCAGCAATATCGGTACTACTTCATTATTTTGGGTTTCAGTA
* *
1576111 TCGATATCATATATGGTATCAGTATCTTTTTAGCATTATGTTTTGACAATATCGGTACTTCCTCA
66 TCGATATCATAAATGGTATCAGTATCATTTTAGCATTATGTTTTGACAATATCGGTACTTCCTCA
* * *
1576176 GTAGTATC-AGTACTACTTCATTATATTT-TGTTTCAATATCGATATCTTATATGGTATCGATAC
131 -CAGTATCGA-TACTACTTCATTAT-TTTGGGTTTCAATATCGATATCATATATGGTATCGATAC
1576239 CATTTTAGCATTC
193 CATTTTAGCATTC
* * * *
1576252 TGTTTTGACAGTATCGATACTGCCTCAGCAATATCGGTACTGCTTCATTATTTTGGGTTTCAGTA
1 TGTTTTGATAGTATTGGTACTGCCTCAGCAATATCGGTACTACTTCATTATTTTGGGTTTCAGTA
1576317 TCGATA
66 TCGATA
1576323 CTGATTTAAC
Statistics
Matches: 247, Mismatches: 25, Indels: 7
0.89 0.09 0.03
Matches are distributed among these distances:
204 86 0.35
205 126 0.51
206 35 0.14
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.42
Consensus pattern (205 bp):
TGTTTTGATAGTATTGGTACTGCCTCAGCAATATCGGTACTACTTCATTATTTTGGGTTTCAGTA
TCGATATCATAAATGGTATCAGTATCATTTTAGCATTATGTTTTGACAATATCGGTACTTCCTCA
CAGTATCGATACTACTTCATTATTTTGGGTTTCAATATCGATATCATATATGGTATCGATACCAT
TTTAGCATTC
Found at i:1576233 original size:50 final size:49
Alignment explanation
Indices: 1576084--1576233 Score: 108
Period size: 50 Copynumber: 2.9 Consensus size: 49
1576074 GCAGTAGCGA
* * * *
1576084 ACTACTTCATTATTTTGGGTTTCAGTGTCGATATCATATATGGTATCAGT
1 ACTACTTCATTATTTT-TGTTTCAATATCGATATCTTATATGGTATCAGT
** * * * *
1576134 ATCTTTTTAGCATTATGTTTTG--ACAATATCGGTA-CTTCCTCAGTAGTATCAGT
1 A-CTACTT--CATTAT-TTTTGTTTCAATATCGATATCTT-AT-A-TGGTATCAGT
1576187 ACTACTTCATTATATTTTGTTTCAATATCGATATCTTATATGGTATC
1 ACTACTTCATTAT-TTTTGTTTCAATATCGATATCTTATATGGTATC
1576234 GATACCATTT
Statistics
Matches: 73, Mismatches: 17, Indels: 20
0.66 0.15 0.18
Matches are distributed among these distances:
50 20 0.27
51 14 0.19
52 16 0.22
53 20 0.27
54 3 0.04
ACGTcount: A:0.25, C:0.15, G:0.14, T:0.45
Consensus pattern (49 bp):
ACTACTTCATTATTTTTGTTTCAATATCGATATCTTATATGGTATCAGT
Found at i:1578702 original size:27 final size:28
Alignment explanation
Indices: 1578662--1578717 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 28
1578652 AAATTTTTTC
*
1578662 AAAAATACACTTTATTTAATT-ATAATTA
1 AAAAATACAATTTA-TTAATTAATAATTA
*
1578690 AAAAATA-AATTTATTACTTAATAATTA
1 AAAAATACAATTTATTAATTAATAATTA
1578717 A
1 A
1578718 TTTTTGATAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 5 0.20
27 13 0.52
28 7 0.28
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (28 bp):
AAAAATACAATTTATTAATTAATAATTA
Found at i:1583213 original size:103 final size:103
Alignment explanation
Indices: 1583050--1583377 Score: 440
Period size: 103 Copynumber: 3.2 Consensus size: 103
1583040 ATCATTTCTG
* * * * *
1583050 CCTCAGCAGTAACGATACTACTTCATTATTTTGGGTTTCAGTATCGATATCATGTATGGTATTGG
1 CCTCAACAGTATCGATACTACTTCATTATTTTTGGTTTCAGTATCGATATCATATATGGTATCGG
* *
1583115 TACCATTTTAGCATTATATTTTGACAGTATCGATACTT
66 TACCATTTTAGCATTATGTTTTGACAGTATCGGTACTT
* *
1583153 CCTCAACAGTATCGATACTACTTCATTATTTTTGGTTTCAGTATCAATATCATATTTGGTATCGG
1 CCTCAACAGTATCGATACTACTTCATTATTTTTGGTTTCAGTATCGATATCATATATGGTATCGG
* *
1583218 TACCATTTTAGCATTCTGTTTTGACAGTATCGGTACTG
66 TACCATTTTAGCATTATGTTTTGACAGTATCGGTACTT
** ** * * * *
1583256 CCTCAATTGTCCCGGTACTGCTTCATTATTTTTGGTTTCAATATCGATATCATATATGGTATCGA
1 CCTCAACAGTATCGATACTACTTCATTATTTTTGGTTTCAGTATCGATATCATATATGGTATCGG
*
1583321 TACCATTTTAGCATTATGTTTTGACCGTATCGGTACTT
66 TACCATTTTAGCATTATGTTTTGACAGTATCGGTACTT
* ** *
1583359 CTTCAGTAGTATCGGTACT
1 CCTCAACAGTATCGATACT
1583378 TCCTCAGCAG
Statistics
Matches: 196, Mismatches: 29, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
103 196 1.00
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.41
Consensus pattern (103 bp):
CCTCAACAGTATCGATACTACTTCATTATTTTTGGTTTCAGTATCGATATCATATATGGTATCGG
TACCATTTTAGCATTATGTTTTGACAGTATCGGTACTT
Found at i:1583372 original size:20 final size:20
Alignment explanation
Indices: 1583347--1583403 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
1583337 TGTTTTGACC
*
1583347 GTATCGGTACTTCTTCAGTA
1 GTATCGGTACTTCTTCAGCA
*
1583367 GTATCGGTACTTCCTCAGCA
1 GTATCGGTACTTCTTCAGCA
* *
1583387 GTATCGATACTACTTCA
1 GTATCGGTACTTCTTCA
1583404 TTTTTTTGGG
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:0.23, C:0.25, G:0.18, T:0.35
Consensus pattern (20 bp):
GTATCGGTACTTCTTCAGCA
Found at i:1583416 original size:123 final size:123
Alignment explanation
Indices: 1583271--1583500 Score: 354
Period size: 123 Copynumber: 1.9 Consensus size: 123
1583261 ATTGTCCCGG
* *
1583271 TACTGCTTCATTATTTTTGGTTTCAATATCGATATCATATATGGTATCGATACCATTTTAGCATT
1 TACTACTTCATTATTTTTGGTTTCAATACCGATATCATATATGGTATCGATACCATTTTAGCATT
* * * *
1583336 ATGTTTTGACCGTATCGGTACTTCTTCAGTAGTATCGGTACTTCCTCAGCAGTATCGA
66 ATGTTTTGACAGTATCGGTACTGCCTCAGCAGTATCGGTACTTCCTCAGCAGTATCGA
* * * *
1583394 TACTACTTCATT-TTTTTGGGTTTCAGTACCGATATCATATATGGTATTGGTACCATTTTAGTAT
1 TACTACTTCATTATTTTT-GGTTTCAATACCGATATCATATATGGTATCGATACCATTTTAGCAT
1583458 TATGTTTTGACAGTATCGGTACTGCCTCAGCAGTATCGGTACT
65 TATGTTTTGACAGTATCGGTACTGCCTCAGCAGTATCGGTACT
1583501 GCTTCATTAT
Statistics
Matches: 96, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
122 5 0.05
123 91 0.95
ACGTcount: A:0.23, C:0.18, G:0.17, T:0.42
Consensus pattern (123 bp):
TACTACTTCATTATTTTTGGTTTCAATACCGATATCATATATGGTATCGATACCATTTTAGCATT
ATGTTTTGACAGTATCGGTACTGCCTCAGCAGTATCGGTACTTCCTCAGCAGTATCGA
Found at i:1588538 original size:58 final size:57
Alignment explanation
Indices: 1588442--1588567 Score: 191
Period size: 58 Copynumber: 2.2 Consensus size: 57
1588432 TAAATGTAGA
** *
1588442 TTTGCCCCTAAACTATACTCTTTTTACCGAATTGCTCCCTAAAGTACTTTCAAGATG
1 TTTGCCCCTAAACTATACTCTTTTTACCGAATAACTCCCTAAAATACTTTCAAGATG
* *
1588499 TTTTGCCCCTAAACTATACTGTTTTTACCGAATAACTCCCTAAAATACTTTTAAGATG
1 -TTTGCCCCTAAACTATACTCTTTTTACCGAATAACTCCCTAAAATACTTTCAAGATG
1588557 TTTG-CCCTAAA
1 TTTGCCCCTAAA
1588568 GTTTTCAAAC
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
56 7 0.11
57 4 0.06
58 52 0.83
ACGTcount: A:0.29, C:0.25, G:0.10, T:0.37
Consensus pattern (57 bp):
TTTGCCCCTAAACTATACTCTTTTTACCGAATAACTCCCTAAAATACTTTCAAGATG
Found at i:1589869 original size:21 final size:21
Alignment explanation
Indices: 1589845--1589894 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
1589835 AATGACGTTA
* *
1589845 TAAAATACAATTTAA-ATTATT
1 TAAAATA-AATTCAATAGTATT
1589866 TAAAATGAAATTCAATAGTATT
1 TAAAAT-AAATTCAATAGTATT
1589888 TAAAATA
1 TAAAATA
1589895 GGTTACAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 13 0.52
22 12 0.48
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (21 bp):
TAAAATAAATTCAATAGTATT
Found at i:1594850 original size:20 final size:20
Alignment explanation
Indices: 1594811--1594850 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
1594801 TATATTTTGA
* *
1594811 CAGTATTGGTACTTCCTCAT
1 CAGTATCGGTACTACCTCAT
*
1594831 CAGTATCGGTACTACTTCAT
1 CAGTATCGGTACTACCTCAT
1594851 TATTTTGGGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.38
Consensus pattern (20 bp):
CAGTATCGGTACTACCTCAT
Found at i:1594887 original size:50 final size:50
Alignment explanation
Indices: 1594730--1594888 Score: 121
Period size: 50 Copynumber: 3.1 Consensus size: 50
1594720 TTCCTCAGCA
* *
1594730 GTATCGATACTACTTCATTATTTTGGGTTTCAGTATCGACATCATATATG
1 GTATCGGTACTACTTCATTATTTTGGGTTTCAGTATCGATATCATATATG
* * * ** * * *
1594780 GTATCAGTACCATTTTAGCATTATATTT---TGACAGTATTGGTACTTCCTCATCA--
1 GTATCGGTACTA-CTT--CATTAT-TTTGGGTTTCAGTATCGATA--TCAT-AT-ATG
1594833 GTATCGGTACTACTTCATTATTTTGGGTTTCAGTATCGATATCATATATG
1 GTATCGGTACTACTTCATTATTTTGGGTTTCAGTATCGATATCATATATG
1594883 GTATCG
1 GTATCG
1594889 ATACCATTTT
Statistics
Matches: 78, Mismatches: 18, Indels: 26
0.64 0.15 0.21
Matches are distributed among these distances:
48 1 0.01
49 5 0.06
50 24 0.31
51 11 0.14
52 12 0.15
53 19 0.24
54 5 0.06
55 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.42
Consensus pattern (50 bp):
GTATCGGTACTACTTCATTATTTTGGGTTTCAGTATCGATATCATATATG
Found at i:1594975 original size:103 final size:103
Alignment explanation
Indices: 1594606--1594977 Score: 529
Period size: 103 Copynumber: 3.6 Consensus size: 103
1594596 CCGTTGTTTG
* * ** *
1594606 GACAGTATCGGTACTACCTCAGCAGTATCGATACTACTTCATTATTTTATGTTTCAATATCG--A
1 GACAGTATCGATACTTCCTCAGCAGTATCGATACTACTTCATTATTTTGGGTTTCAGTATCGATA
*
1594669 T-ATATATGGTATACG-TACCATTTTAGCATTCTGTTTT
66 TCATATATGGTAT-CGATACCATTTTAGCATTCTATTTT
*
1594706 GACAGTATCGATACTTCCTCAGCAGTATCGATACTACTTCATTATTTTGGGTTTCAGTATCGACA
1 GACAGTATCGATACTTCCTCAGCAGTATCGATACTACTTCATTATTTTGGGTTTCAGTATCGATA
*
1594771 TCATATATGGTATC-AGTACCATTTTAGCATTATATTTT
66 TCATATATGGTATCGA-TACCATTTTAGCATTCTATTTT
* * * *
1594809 GACAGTATTGGTACTTCCTCATCAGTATCGGTACTACTTCATTATTTTGGGTTTCAGTATCGATA
1 GACAGTATCGATACTTCCTCAGCAGTATCGATACTACTTCATTATTTTGGGTTTCAGTATCGATA
1594874 TCATATATGGTATCGATACCATTTTAGCATTCTATTTT
66 TCATATATGGTATCGATACCATTTTAGCATTCTATTTT
* * * * * *
1594912 GACAGTATCGATACTGCCTCAGCAGTATTGGTATTGCTTTATTATTTTGGGTTTCAGTATCGATA
1 GACAGTATCGATACTTCCTCAGCAGTATCGATACTACTTCATTATTTTGGGTTTCAGTATCGATA
1594977 T
66 T
1594978 ATGTATTGAT
Statistics
Matches: 245, Mismatches: 21, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
100 57 0.23
102 3 0.01
103 184 0.75
104 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.16, T:0.41
Consensus pattern (103 bp):
GACAGTATCGATACTTCCTCAGCAGTATCGATACTACTTCATTATTTTGGGTTTCAGTATCGATA
TCATATATGGTATCGATACCATTTTAGCATTCTATTTT
Found at i:1595190 original size:19 final size:19
Alignment explanation
Indices: 1595163--1595199 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
1595153 CAAGTTCGCA
1595163 TTGCAATTTTCCAAATTTG
1 TTGCAATTTTCCAAATTTG
*
1595182 TTGCGATTTTCCAAATTT
1 TTGCAATTTTCCAAATTT
1595200 ACGTTAGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.16, G:0.11, T:0.49
Consensus pattern (19 bp):
TTGCAATTTTCCAAATTTG
Found at i:1595239 original size:21 final size:21
Alignment explanation
Indices: 1595215--1595488 Score: 177
Period size: 21 Copynumber: 13.4 Consensus size: 21
1595205 AGTCCAAATT
1595215 CGTTGCGATAGTTCAAGTTCA
1 CGTTGCGATAGTTCAAGTTCA
*
1595236 CGTTGCGATAG-TCGAAGTTCG
1 CGTTGCGATAGTTC-AAGTTCA
* *
1595257 CGTTGCGAT-TTTCCAAATT--
1 CGTTGCGATAGTT-CAAGTTCA
1595276 CGTTGCGATAG-TCTAAGTTCA
1 CGTTGCGATAGTTC-AAGTTCA
* *
1595297 CGTTGCGAT-TTTCCAAATT--
1 CGTTGCGATAGTT-CAAGTTCA
*
1595316 CGTTGCGATAG-TCGAAGTTCG
1 CGTTGCGATAGTTC-AAGTTCA
* *
1595337 CGTTGCGAT-TTTCCAAATTCA
1 CGTTGCGATAGTT-CAAGTTCA
*
1595358 --TTGCGATAGTCCAAGTTCA
1 CGTTGCGATAGTTCAAGTTCA
*
1595377 CGTTGCGATAG-TCGAAGTTCG
1 CGTTGCGATAGTTC-AAGTTCA
* * *
1595398 CATTGCGAT-TTTCCAAATTCA
1 CGTTGCGATAGTT-CAAGTTCA
* *
1595419 --TTGCGATAGTCCAAGCTCA
1 CGTTGCGATAGTTCAAGTTCA
1595438 CGTTGCGATAG-TCGAAGTTCA
1 CGTTGCGATAGTTC-AAGTTCA
** **
1595459 CGTTGCGATAGTAGAAGTTTG
1 CGTTGCGATAGTTCAAGTTCA
1595480 CGTTGCGAT
1 CGTTGCGAT
1595489 TTTCCAAATT
Statistics
Matches: 196, Mismatches: 31, Indels: 52
0.70 0.11 0.19
Matches are distributed among these distances:
18 2 0.01
19 55 0.28
20 6 0.03
21 129 0.66
22 4 0.02
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (21 bp):
CGTTGCGATAGTTCAAGTTCA
Found at i:1595239 original size:35 final size:35
Alignment explanation
Indices: 1595172--1595239 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
1595162 ATTGCAATTT
* * *
1595172 TCCAAATTTGTTGCGATTTTCCAAATTTACGTTAG
1 TCCAAATTCGTTGCGATGTTCCAAATTCACGTTAG
*
1595207 TCCAAATTCGTTGCGATAGTT-CAAGTTCACGTT
1 TCCAAATTCGTTGCGAT-GTTCCAAATTCACGTT
1595240 GCGATAGTCG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
35 26 0.93
36 2 0.07
ACGTcount: A:0.25, C:0.19, G:0.16, T:0.40
Consensus pattern (35 bp):
TCCAAATTCGTTGCGATGTTCCAAATTCACGTTAG
Found at i:1595279 original size:61 final size:60
Alignment explanation
Indices: 1595204--1595547 Score: 249
Period size: 61 Copynumber: 5.7 Consensus size: 60
1595194 AAATTTACGT
*
1595204 TAGTCCAAATTCGTTGCGATAGTTCAAGTTCACGTTGCGATAGTCGAAGTTCGCGTTGCGA
1 TAGTCCAAATTCGTTGCGATAGTTCAAGTTCACGTTGCGATAGTCCAAGTTC-CGTTGCGA
** ** *
1595265 TTTTCCAAATTCGTTGCGATAG-TCTAAGTTCACGTTGCGATTTTCCAAATT-CGTTGCGA
1 TAGTCCAAATTCGTTGCGATAGTTC-AAGTTCACGTTGCGATAGTCCAAGTTCCGTTGCGA
* * * *
1595324 TAGTCGAAGTTCGCGTTGCGAT-TTTCCAAATTCA--TTGCGATAGTCCAAGTTCACGTTGCGA
1 TAGTCCAAATT--CGTTGCGATAGTT-CAAGTTCACGTTGCGATAGTCCAAGTTC-CGTTGCGA
* * * * *
1595385 TAGTCGAAGTTCGCATTGCGAT-TTTCCAAATTCA--TTGCGATAGTCCAAGCTCACGTTGCGA
1 TAGTCCAAATTCG--TTGCGATAGTT-CAAGTTCACGTTGCGATAGTCCAAGTTC-CGTTGCGA
* * ** ** ** *
1595446 TAGTCGAAGTTCACGTTGCGATAGTAGAAGTTTGCGTTGCGATTTTCCAAATT-CGTTGCGA
1 TAGTCCAAATT--CGTTGCGATAGTTCAAGTTCACGTTGCGATAGTCCAAGTTCCGTTGCGA
** * *
1595507 TTTTCCAAATTCGTTACGATAG-TCGAAGTTCGCGTTGCGAT
1 TAGTCCAAATTCGTTGCGATAGTTC-AAGTTCACGTTGCGAT
1595548 TTTGGAAAAT
Statistics
Matches: 234, Mismatches: 34, Indels: 32
0.78 0.11 0.11
Matches are distributed among these distances:
59 56 0.24
60 2 0.01
61 159 0.68
62 2 0.01
63 15 0.06
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (60 bp):
TAGTCCAAATTCGTTGCGATAGTTCAAGTTCACGTTGCGATAGTCCAAGTTCCGTTGCGA
Found at i:1595280 original size:40 final size:40
Alignment explanation
Indices: 1595236--1595550 Score: 296
Period size: 40 Copynumber: 7.8 Consensus size: 40
1595226 TTCAAGTTCA
*
1595236 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATT
1 CGTTGCGATAGTCGAAGTTCACGTTGCGATTTTCCAAATT
*
1595276 CGTTGCGATAGTCTAAGTTCACGTTGCGATTTTCCAAATT
1 CGTTGCGATAGTCGAAGTTCACGTTGCGATTTTCCAAATT
*
1595316 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATT
1 CGTTGCGATAGTCGAAGTTCACGTTGCGATTTTCCAAATT
* * ** * *
1595356 CATTGCGATAGTCCAAGTTCACGTTGCGATAGTCGAAGTT
1 CGTTGCGATAGTCGAAGTTCACGTTGCGATTTTCCAAATT
** * * ** * *
1595396 CGCATTGCGATTTTCCAAATTCA--TTGCGATAGTCCAAGCTCA
1 CG--TTGCGATAGTCGAAGTTCACGTTGCGATTTTCCAA-AT-T
** ** *
1595438 CGTTGCGATAGTCGAAGTTCACGTTGCGATAGTAGAAGTTT
1 CGTTGCGATAGTCGAAGTTCACGTTGCGATTTTCCAA-ATT
** * *
1595479 GCGTTGCGATTTTCCAAATT--CGTTGCGATTTTCCAAATT
1 -CGTTGCGATAGTCGAAGTTCACGTTGCGATTTTCCAAATT
* *
1595518 CGTTACGATAGTCGAAGTTCGCGTTGCGATTTT
1 CGTTGCGATAGTCGAAGTTCACGTTGCGATTTT
1595551 GGAAAATCGC
Statistics
Matches: 226, Mismatches: 40, Indels: 18
0.80 0.14 0.06
Matches are distributed among these distances:
38 14 0.06
39 2 0.01
40 162 0.72
41 1 0.00
42 47 0.21
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (40 bp):
CGTTGCGATAGTCGAAGTTCACGTTGCGATTTTCCAAATT
Found at i:1595344 original size:101 final size:102
Alignment explanation
Indices: 1595142--1595547 Score: 368
Period size: 101 Copynumber: 4.1 Consensus size: 102
1595132 CAATGCGATT
* ** * ** *
1595142 TTGCGATAGTCCAAGTTCGCATTGCAATTTTCCAAATT-TGTTGCGATTTTCCAAATTTACGTT-
1 TTGCGATAGTCCAAGTTCGCATTGCGATAGTCCAAATTACGTTGCGATAGTCCAAATTCACGTTG
*
1595205 --A--GTCCAAATTCGTTGCGATAGTTC-AAGTTCACG
66 CGATTTTCCAAATTCGTTGCGATAG-TCGAAGTTCACG
* * ** * *
1595238 TTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATT-CGTTGCGATAGTCTAAGTTCACGTTG
1 TTGCGATAGTCCAAGTTCGCATTGCGATAGTCCAAATTACGTTGCGATAGTCCAAATTCACGTTG
*
1595302 CGATTTTCCAAATTCGTTGCGATAGTCGAAGTTCGCG
66 CGATTTTCCAAATTCGTTGCGATAGTCGAAGTTCACG
** * * * * * *
1595339 TTGCGATTTTCCAAATT--CATTGCGATAGTCCAAGTTCACGTTGCGATAGTCGAAGTTCGCATT
1 TTGCGATAGTCCAAGTTCGCATTGCGATAGTCCAAATT-ACGTTGCGATAGTCCAAATTCACGTT
* * *
1595402 GCGATTTTCCAAATTCATTGCGATAGTCCAAGCTCACG
65 GCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTCACG
* * * ** * * **
1595440 TTGCGATAGTCGAAGTTCACGTTGCGATAGTAGAAGTTTGCGTTGCGATTTTCCAAATT--CGTT
1 TTGCGATAGTCCAAGTTCGCATTGCGATAGTCCAA-ATTACGTTGCGATAGTCCAAATTCACGTT
* *
1595503 GCGATTTTCCAAATTCGTTACGATAGTCGAAGTTCGCG
65 GCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTCACG
1595541 TTGCGAT
1 TTGCGAT
1595548 TTTGGAAAAT
Statistics
Matches: 254, Mismatches: 45, Indels: 17
0.80 0.14 0.05
Matches are distributed among these distances:
96 54 0.21
99 16 0.06
100 2 0.01
101 152 0.60
103 28 0.11
104 2 0.01
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (102 bp):
TTGCGATAGTCCAAGTTCGCATTGCGATAGTCCAAATTACGTTGCGATAGTCCAAATTCACGTTG
CGATTTTCCAAATTCGTTGCGATAGTCGAAGTTCACG
Found at i:1595461 original size:82 final size:80
Alignment explanation
Indices: 1595142--1595547 Score: 268
Period size: 80 Copynumber: 5.1 Consensus size: 80
1595132 CAATGCGATT
** * ** ** * *
1595142 TTGCGATAGTCCAAGTTCGCATTGCAATTTTCCAAATTTGTTGCGATTTTCCAAAT---TTACGT
1 TTGCGATAGTAGAAGTTCGCATTGCGATTTTCCAAATTCATTGCGATAGTCCAAATACGTTGCGA
* *
1595204 TAGTCCAAATT--CG
66 TAGTCGAAGTTCACG
** * * ** * * * ** *
1595217 TTGCGATAGTTCAAGTTCACGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGC
1 TTGCGATAGTAGAAGTTCGCATTGCGATTTTCCAAATT--CATTGCGATAGTCCAAATACGTTGC
*
1595282 GATAGTCTAAGTTCACG
64 GATAGTCGAAGTTCACG
** ** * ** * * * ** * *
1595299 TTGCGATTTTCCAAATTCG--TTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCATTGC
1 TTGCGATAGTAGAAGTTCGCATTGCGATTTTCCAAATT--CATTGCGATAGTCCAAATACGTTGC
*
1595362 GATAGTCCAAGTTCACG
64 GATAGTCGAAGTTCACG
* *
1595379 TTGCGATAGTCGAAGTTCGCATTGCGATTTTCCAAATTCATTGCGATAGTCCAAGCTCACGTTGC
1 TTGCGATAGTAGAAGTTCGCATTGCGATTTTCCAAATTCATTGCGATAGTCCAA-AT-ACGTTGC
1595444 GATAGTCGAAGTTCACG
64 GATAGTCGAAGTTCACG
* * * ** * *
1595461 TTGCGATAGTAGAAGTTTGCGTTGCGATTTTCCAAATTCGTTGCGATTTTCCAAATTCGTTACGA
1 TTGCGATAGTAGAAGTTCGCATTGCGATTTTCCAAATTCATTGCGATAGTCCAAATACGTTGCGA
*
1595526 TAGTCGAAGTTCGCG
66 TAGTCGAAGTTCACG
1595541 TTGCGAT
1 TTGCGAT
1595548 TTTGGAAAAT
Statistics
Matches: 275, Mismatches: 45, Indels: 17
0.82 0.13 0.05
Matches are distributed among these distances:
75 30 0.11
77 17 0.06
80 128 0.47
81 2 0.01
82 98 0.36
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (80 bp):
TTGCGATAGTAGAAGTTCGCATTGCGATTTTCCAAATTCATTGCGATAGTCCAAATACGTTGCGA
TAGTCGAAGTTCACG
Found at i:1595971 original size:19 final size:20
Alignment explanation
Indices: 1595946--1596036 Score: 96
Period size: 19 Copynumber: 4.4 Consensus size: 20
1595936 CTTATTTTGG
1595946 ATTTTTCACTATCGCAACAC
1 ATTTTTCACTATCGCAACAC
1595966 -TTTTTCACTATCGCAACAATAC
1 ATTTTTCACTATCGCAAC---AC
* *
1595988 GTTTTTCAAACTCTCGCAACAC
1 ATTTTTC--ACTATCGCAACAC
*
1596010 A-TTTTAACTATCGCAACAC
1 ATTTTTCACTATCGCAACAC
1596029 ATTTTTCA
1 ATTTTTCA
1596037 AAATCACGTT
Statistics
Matches: 59, Mismatches: 5, Indels: 14
0.76 0.06 0.18
Matches are distributed among these distances:
19 30 0.51
20 5 0.08
21 4 0.07
22 4 0.07
23 6 0.10
25 10 0.17
ACGTcount: A:0.31, C:0.27, G:0.05, T:0.36
Consensus pattern (20 bp):
ATTTTTCACTATCGCAACAC
Found at i:1598993 original size:102 final size:103
Alignment explanation
Indices: 1598784--1599259 Score: 612
Period size: 103 Copynumber: 4.7 Consensus size: 103
1598774 GCTTGATCGT
* * *
1598784 TGTTTTGACAGTAGCAGTACTGT-CTCAGCAGTATCGGTAATACTTCATTATTTTGGGTTTCAGT
1 TGTTTTGACAGTATCGGTACT-TCCTCAGCAGTATCGGTACTACTTCATTATTTTGGGTTTCAGT
1598848 ATCG--AT-ATATATGGTATCGGTACCATTTTAACATTC
65 ATCGATATCATATATGGTATCGGTACCATTTTAACATTC
* * * *
1598884 TGTTTTGACAATATCGGTACTTCCTAAGCAGTATCGATACTACTTCATTATTTTGGATTTC-GTA
1 TGTTTTGACAGTATCGGTACTTCCTCAGCAGTATCGGTACTACTTCATTATTTTGGGTTTCAGTA
*
1598948 TCGATATCATATATGGTATCGGTACCATTTTAGCATTC
66 TCGATATCATATATGGTATCGGTACCATTTTAACATTC
* * *
1598986 TGTTTTGATAGTATCGGTACTGT-CTCAGCAGTAAC-G-A-TACTACATTATTTTGGGTTTCAGT
1 TGTTTTGACAGTATCGGTACT-TCCTCAGCAGTATCGGTACTACTTCATTATTTTGGGTTTCAGT
* *
1599047 ATC-ATATCATATATGATATCGGTACCATTTTAACATTA
65 ATCGATATCATATATGGTATCGGTACCATTTTAACATTC
* * * * * *
1599085 TATTTTGACAGTATTGATACTTCCTCATCAATATCGGTACTACTTCATTATTTTGAGTTTCAGTA
1 TGTTTTGACAGTATCGGTACTTCCTCAGCAGTATCGGTACTACTTCATTATTTTGGGTTTCAGTA
* * *
1599150 TCGATATCATATATGGTATCGATACTATTTTAGCATTC
66 TCGATATCATATATGGTATCGGTACCATTTTAACATTC
* * * * * *
1599188 TGTTTTGGCAGTATCGGTACTGCCTCAGCATTATTGGTACTGCTTTATTATTTTGGGTTTCAGTA
1 TGTTTTGACAGTATCGGTACTTCCTCAGCAGTATCGGTACTACTTCATTATTTTGGGTTTCAGTA
1599253 TCGATAT
66 TCGATAT
1599260 ATGTATCGAT
Statistics
Matches: 322, Mismatches: 43, Indels: 19
0.84 0.11 0.05
Matches are distributed among these distances:
98 1 0.00
99 84 0.26
100 59 0.18
101 3 0.01
102 83 0.26
103 92 0.29
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.42
Consensus pattern (103 bp):
TGTTTTGACAGTATCGGTACTTCCTCAGCAGTATCGGTACTACTTCATTATTTTGGGTTTCAGTA
TCGATATCATATATGGTATCGGTACCATTTTAACATTC
Found at i:1599091 original size:99 final size:100
Alignment explanation
Indices: 1598784--1599259 Score: 534
Period size: 102 Copynumber: 4.7 Consensus size: 100
1598774 GCTTGATCGT
* * *
1598784 TGTTTTGACAGTAGCAGTACTGTCTCAGCAGTATCGGTAATACTTCATTATTTTGGGTTTCAGTA
1 TGTTTTGACAGTATCGGTACTGTCTCAGCAGTATC-G--ATACTACATTATTTTGGGTTTCAGTA
1598849 TCG--AT-ATATATGGTATCGGTACCATTTTAACATTC
63 TCGATATCATATATGGTATCGGTACCATTTTAACATTC
* * *
1598884 TGTTTTGACAATATCGGTACT-TCCTAAGCAGTATCGATACTACTTCATTATTTTGGATTTC-GT
1 TGTTTTGACAGTATCGGTACTGT-CTCAGCAGTATCGATACTA---CATTATTTTGGGTTTCAGT
*
1598947 ATCGATATCATATATGGTATCGGTACCATTTTAGCATTC
62 ATCGATATCATATATGGTATCGGTACCATTTTAACATTC
* *
1598986 TGTTTTGATAGTATCGGTACTGTCTCAGCAGTAACGATACTACATTATTTTGGGTTTCAGTATC-
1 TGTTTTGACAGTATCGGTACTGTCTCAGCAGTATCGATACTACATTATTTTGGGTTTCAGTATCG
* *
1599050 ATATCATATATGATATCGGTACCATTTTAACATTA
66 ATATCATATATGGTATCGGTACCATTTTAACATTC
* * * * * * *
1599085 TATTTTGACAGTATTGATACT-TCCTCATCAATATCGGTACTACTTCATTATTTTGAGTTTCAGT
1 TGTTTTGACAGTATCGGTACTGT-CTCAGCAGTATC-G-A-TACTACATTATTTTGGGTTTCAGT
* * *
1599149 ATCGATATCATATATGGTATCGATACTATTTTAGCATTC
62 ATCGATATCATATATGGTATCGGTACCATTTTAACATTC
* * * * * *
1599188 TGTTTTGGCAGTATCGGTACTGCCTCAGCATTATTGGTACTGCTTTATTATTTTGGGTTTCAGTA
1 TGTTTTGACAGTATCGGTACTGTCTCAGCAGTATCGATACTAC---ATTATTTTGGGTTTCAGTA
1599253 TCGATAT
63 TCGATAT
1599260 ATGTATCGAT
Statistics
Matches: 318, Mismatches: 40, Indels: 33
0.81 0.10 0.08
Matches are distributed among these distances:
97 5 0.02
98 1 0.00
99 81 0.25
100 55 0.17
101 3 0.01
102 91 0.29
103 82 0.26
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.42
Consensus pattern (100 bp):
TGTTTTGACAGTATCGGTACTGTCTCAGCAGTATCGATACTACATTATTTTGGGTTTCAGTATCG
ATATCATATATGGTATCGGTACCATTTTAACATTC
Found at i:1599184 original size:202 final size:200
Alignment explanation
Indices: 1598784--1599270 Score: 636
Period size: 202 Copynumber: 2.4 Consensus size: 200
1598774 GCTTGATCGT
* * *
1598784 TGTTTTGACAGTAGCAGTACTGTCTCAGCAGTATCGGTAATACTTCATTATTTTGGGTTTCAGTA
1 TGTTTTGACAGTATCGGTACTGTCTCAGCAGTATC-G--ATACTACATTATTTTGGGTTTCAGTA
* * * * *
1598849 TC-GATATATATGGTATCGGTACCATTTTAACATTCTGTTTTGACAATATCGGTACTTCCTAAGC
63 TCATATATATATGATATCGGTACCATTTTAACATTATATTTTGACAATATCGATACTTCCTAAGC
* *
1598913 AGTATCGATACTACTTCATTATTTTGGATTTCGTATCGATATCATATATGGTATCGGTACCATTT
128 AATATCGATACTACTTCATTATTTTGGATTTCGTATCGATATCATATATGGTATCGATACCATTT
1598978 TAGCATTC
193 TAGCATTC
* *
1598986 TGTTTTGATAGTATCGGTACTGTCTCAGCAGTAACGATACTACATTATTTTGGGTTTCAGTATCA
1 TGTTTTGACAGTATCGGTACTGTCTCAGCAGTATCGATACTACATTATTTTGGGTTTCAGTATCA
* * * *
1599051 TATCATATATGATATCGGTACCATTTTAACATTATATTTTGACAGTATTGATACTTCCTCATCAA
66 TAT-ATATATGATATCGGTACCATTTTAACATTATATTTTGACAATATCGATACTTCCTAAGCAA
* *
1599116 TATCGGTACTACTTCATTATTTT-GAGTTTCAGTATCGATATCATATATGGTATCGATACTATTT
130 TATCGATACTACTTCATTATTTTGGA-TTTC-GTATCGATATCATATATGGTATCGATACCATTT
1599180 TAGCATTC
193 TAGCATTC
* * * * * *
1599188 TGTTTTGGCAGTATCGGTACTGCCTCAGCATTATTGGTACTGCTTTATTATTTTGGGTTTCAGTA
1 TGTTTTGACAGTATCGGTACTGTCTCAGCAGTATCGATACTAC---ATTATTTTGGGTTTCAGTA
*
1599253 TCGATATATGTATCGATA
63 TC-ATATATATAT-GATA
1599271 CTGATTTAAT
Statistics
Matches: 249, Mismatches: 27, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
199 27 0.11
200 4 0.02
201 79 0.32
202 105 0.42
205 26 0.10
206 8 0.03
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.42
Consensus pattern (200 bp):
TGTTTTGACAGTATCGGTACTGTCTCAGCAGTATCGATACTACATTATTTTGGGTTTCAGTATCA
TATATATATGATATCGGTACCATTTTAACATTATATTTTGACAATATCGATACTTCCTAAGCAAT
ATCGATACTACTTCATTATTTTGGATTTCGTATCGATATCATATATGGTATCGATACCATTTTAG
CATTC
Found at i:1599306 original size:20 final size:20
Alignment explanation
Indices: 1599262--1599330 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
1599252 ATCGATATAT
*
1599262 GTATCGATACTGATTTAATA
1 GTATCGATACTGATTTAACA
* * *
1599282 ATATCTATATTGATTTAACA
1 GTATCGATACTGATTTAACA
*
1599302 GTATCGATACTG-TTATAGCA
1 GTATCGATACTGATT-TAACA
1599322 GTATCGATA
1 GTATCGATA
1599331 TAACATTATT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
19 2 0.05
20 38 0.95
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.39
Consensus pattern (20 bp):
GTATCGATACTGATTTAACA
Found at i:1601998 original size:103 final size:103
Alignment explanation
Indices: 1601819--1602394 Score: 726
Period size: 103 Copynumber: 5.7 Consensus size: 103
1601809 ACTTGACCGT
* * * * *
1601819 TGTTTTGACAGTATCGGTACTGCCTCAGTAGTATCGGTACTACATCATTATTTTGGGTTTTAGTA
1 TGTTTTGACAGTATCGATACTGCCTCAGCAGTATCGATACTACTTCATTATTTTGGGTTTCAGTA
** *
1601884 TCGACGTCATATATGGTATCAGTACCATTTTAGCATTC
66 TCGATATCATATATGGTATCGGTACCATTTTAGCATTC
* * * *
1601922 TGTTTTGACAGTATCGATACTTCCTTAGCAGTATCGATACTACTTCATTATTTTGGGATTCAATA
1 TGTTTTGACAGTATCGATACTGCCTCAGCAGTATCGATACTACTTCATTATTTTGGGTTTCAGTA
* * * *
1601987 CCGATATCATATATGATATCGGAACCATTTTAGCATTA
66 TCGATATCATATATGGTATCGGTACCATTTTAGCATTC
* *
1602025 TGTTTTGACAGTATC-ATTACTGCCTCAGCAGTAACGATACTACTTTATTATTTTGGGTTTCAGT
1 TGTTTTGACAGTATCGA-TACTGCCTCAGCAGTATCGATACTACTTCATTATTTTGGGTTTCAGT
* * *
1602089 ATAGATATCATATATGATATCGGAACCATTTTAGCATTC
65 ATCGATATCATATATGGTATCGGTACCATTTTAGCATTC
*
1602128 TGTTTTGACAGTATCGGTACTGCCTCAGC---A--G----T--TTCATTATTTTGGGTTTCAGTA
1 TGTTTTGACAGTATCGATACTGCCTCAGCAGTATCGATACTACTTCATTATTTTGGGTTTCAGTA
*
1602182 TCGATATCATATATGGTATCGGTACCATTTTAGCATTA
66 TCGATATCATATATGGTATCGGTACCATTTTAGCATTC
* * * * *
1602220 TATTTTGACAGTATTGATACTTCCTCATCAGTATCGGTACTACTTCATTATTTTGGGTTTCAGTA
1 TGTTTTGACAGTATCGATACTGCCTCAGCAGTATCGATACTACTTCATTATTTTGGGTTTCAGTA
* *
1602285 TCGATATCATATATGGTATCGATAACATTTTAGCATTC
66 TCGATATCATATATGGTATCGGTACCATTTTAGCATTC
* * * * * * *
1602323 TGATTTGACAGTATCGGTACTGCCTCAGCATTGTCGACACTGCTTTATTATTTTGGGTTTCAGTA
1 TGTTTTGACAGTATCGATACTGCCTCAGCAGTATCGATACTACTTCATTATTTTGGGTTTCAGTA
1602388 TCGATAT
66 TCGATAT
1602395 ATGTATCGAT
Statistics
Matches: 409, Mismatches: 51, Indels: 26
0.84 0.10 0.05
Matches are distributed among these distances:
92 79 0.19
94 1 0.00
95 1 0.00
97 1 0.00
98 1 0.00
100 1 0.00
101 1 0.00
102 1 0.00
103 323 0.79
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.40
Consensus pattern (103 bp):
TGTTTTGACAGTATCGATACTGCCTCAGCAGTATCGATACTACTTCATTATTTTGGGTTTCAGTA
TCGATATCATATATGGTATCGGTACCATTTTAGCATTC
Found at i:1602297 original size:195 final size:195
Alignment explanation
Indices: 1601965--1602352 Score: 600
Period size: 195 Copynumber: 2.0 Consensus size: 195
1601955 TCGATACTAC
*
1601965 TTCATTATTTTGGGATTCAATACCGATATCATATATGATATCGGAACCATTTTAGCATTATGTTT
1 TTCATTATTTTGGGATTCAATACCGATATCATATATGATATCGGAACCATTTTAGCATTATATTT
*
1602030 TGACAGTATCATTACTGCCTCAGCAGTAACGATACTACTTTATTATTTTGGGTTTCAGTATAGAT
66 TGACAGTATCATTACTGCCTCAGCAGTAACGATACTACTTCATTATTTTGGGTTTCAGTATAGAT
* *
1602095 ATCATATATGATATCGGA-ACCATTTTAGCATTCTGTTTTGACAGTATCGGTACTGCCTCAGCAG
131 ATCATATATGATATC-GATAACATTTTAGCATTCTGATTTGACAGTATCGGTACTGCCTCAGCAG
1602159 T
195 T
* * * * *
1602160 TTCATTATTTTGGGTTTCAGTATCGATATCATATATGGTATCGGTACCATTTTAGCATTATATTT
1 TTCATTATTTTGGGATTCAATACCGATATCATATATGATATCGGAACCATTTTAGCATTATATTT
* * * * * *
1602225 TGACAGTATTGA-TACTTCCTCATCAGTATCGGTACTACTTCATTATTTTGGGTTTCAGTATCGA
66 TGACAGTA-TCATTACTGCCTCAGCAGTAACGATACTACTTCATTATTTTGGGTTTCAGTATAGA
*
1602289 TATCATATATGGTATCGATAACATTTTAGCATTCTGATTTGACAGTATCGGTACTGCCTCAGCA
130 TATCATATATGATATCGATAACATTTTAGCATTCTGATTTGACAGTATCGGTACTGCCTCAGCA
1602353 TTGTCGACAC
Statistics
Matches: 175, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
194 2 0.01
195 171 0.98
196 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.16, T:0.40
Consensus pattern (195 bp):
TTCATTATTTTGGGATTCAATACCGATATCATATATGATATCGGAACCATTTTAGCATTATATTT
TGACAGTATCATTACTGCCTCAGCAGTAACGATACTACTTCATTATTTTGGGTTTCAGTATAGAT
ATCATATATGATATCGATAACATTTTAGCATTCTGATTTGACAGTATCGGTACTGCCTCAGCAGT
Found at i:1606637 original size:171 final size:172
Alignment explanation
Indices: 1606321--1606664 Score: 665
Period size: 172 Copynumber: 2.0 Consensus size: 172
1606311 TGATGATCTG
1606321 TTTTTTTTGTTTTTTTTCCTCTTTAATTTTCATAATGGCTATTTTTTTAAACCCCCATCTCTCTT
1 TTTTTTTTGTTTTTTTTCCTCTTTAATTTTCATAATGGCTATTTTTTTAAACCCCCATCTCTCTT
1606386 TGTTTCCTCATCTTCGTTTGCAGGGCATGTGCGTGATCTGGAACGAGCATGGGCGAAAATCTTGA
66 TGTTTCCTCATCTTCGTTTGCAGGGCATGTGCGTGATCTGGAACGAGCATGGGCGAAAATCTTGA
1606451 TCTGTTCGAGGGTGGCTGACAAACGTGAGTTGGCTTGGTGGA
131 TCTGTTCGAGGGTGGCTGACAAACGTGAGTTGGCTTGGTGGA
1606493 TTTTTTGTT-TTTTTTTTCCTCTTTAATTTTCATAATGGCTATTTTTTTAAACCCCCATCTCTCT
1 TTTTTT-TTGTTTTTTTTCCTCTTTAATTTTCATAATGGCTATTTTTTTAAACCCCCATCTCTCT
1606557 TTGTTTCCTCATCTTCGTTTGCAGGGCATGTGCGTGATCTGG-ACGAGCATGGGCGAAAATCTTG
65 TTGTTTCCTCATCTTCGTTTGCAGGGCATGTGCGTGATCTGGAACGAGCATGGGCGAAAATCTTG
1606621 ATCTGTTCGAGGGTGGCTGACAAACGTGAGTTGGCTTGGTGGA
130 ATCTGTTCGAGGGTGGCTGACAAACGTGAGTTGGCTTGGTGGA
1606664 T
1 T
1606665 CGCGTTTCTG
Statistics
Matches: 171, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
171 66 0.39
172 103 0.60
173 2 0.01
ACGTcount: A:0.17, C:0.19, G:0.23, T:0.42
Consensus pattern (172 bp):
TTTTTTTTGTTTTTTTTCCTCTTTAATTTTCATAATGGCTATTTTTTTAAACCCCCATCTCTCTT
TGTTTCCTCATCTTCGTTTGCAGGGCATGTGCGTGATCTGGAACGAGCATGGGCGAAAATCTTGA
TCTGTTCGAGGGTGGCTGACAAACGTGAGTTGGCTTGGTGGA
Found at i:1607447 original size:55 final size:55
Alignment explanation
Indices: 1607363--1607645 Score: 433
Period size: 55 Copynumber: 5.2 Consensus size: 55
1607353 TTCTTTCAAG
* * * * * *
1607363 GAGTAGAA-ACTCAAACAATCTTCAACAATCGTGTCTGCTCACTATTACTTCATA
1 GAGTATAAGACTCGAACCATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGA
* *
1607417 GAGTATAAGACTCGAACCATCTTTAACAATCGTGTCTGCTCCCTATTCCTTCAGA
1 GAGTATAAGACTCGAACCATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGA
* *
1607472 GAGTAAAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGA
1 GAGTATAAGACTCGAACCATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGA
*
1607527 GAGTATAAGACTCGAACCATCTTCAACAATCGTGTATGCTCCCTATTTCTTCAGA
1 GAGTATAAGACTCGAACCATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGA
* * *
1607582 GAGTATAAGACTCGAACCATTTTCAACAATCGTGTATGCTCCCTATTTCTTCATA
1 GAGTATAAGACTCGAACCATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGA
1607637 GAGTATAAG
1 GAGTATAAG
1607646 GCTTAGTTTG
Statistics
Matches: 212, Mismatches: 16, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
54 7 0.03
55 205 0.97
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (55 bp):
GAGTATAAGACTCGAACCATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGA
Found at i:1607910 original size:15 final size:15
Alignment explanation
Indices: 1607890--1607949 Score: 93
Period size: 15 Copynumber: 4.0 Consensus size: 15
1607880 TAATAAGGTT
*
1607890 ATTTATTTTAAAATA
1 ATTTATTATAAAATA
1607905 ATTTATTATAAAATA
1 ATTTATTATAAAATA
*
1607920 ATTTATTTTAAAATA
1 ATTTATTATAAAATA
*
1607935 AATTATTATAAAATA
1 ATTTATTATAAAATA
1607950 TGGATTGATT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 41 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTTATTATAAAATA
Found at i:1607926 original size:30 final size:30
Alignment explanation
Indices: 1607865--1607949 Score: 111
Period size: 30 Copynumber: 2.9 Consensus size: 30
1607855 TTTATTAAAA
* ** *
1607865 TATTTTTAAATAATTTA--ATAAGGTTATT
1 TATTTTAAAATAATTTATTATAAAATAATT
1607893 TATTTTAAAATAATTTATTATAAAATAATT
1 TATTTTAAAATAATTTATTATAAAATAATT
*
1607923 TATTTTAAAATAAATTATTATAAAATA
1 TATTTTAAAATAATTTATTATAAAATA
1607950 TGGATTGATT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
28 16 0.32
30 34 0.68
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.49
Consensus pattern (30 bp):
TATTTTAAAATAATTTATTATAAAATAATT
Found at i:1607984 original size:32 final size:32
Alignment explanation
Indices: 1607948--1608054 Score: 135
Period size: 32 Copynumber: 3.7 Consensus size: 32
1607938 TATTATAAAA
*
1607948 TATGGATTGATTGATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
1607980 TATGGATTGATTTA-TTT---TAA---A--A-
1 TATGGATTGATTTATTTTAAATAATTTATTAG
1608002 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
1608034 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
1608055 ATATGGATTG
Statistics
Matches: 64, Mismatches: 1, Indels: 20
0.75 0.01 0.24
Matches are distributed among these distances:
22 14 0.22
23 4 0.06
25 1 0.02
26 3 0.05
28 3 0.05
29 1 0.02
31 4 0.06
32 34 0.53
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (32 bp):
TATGGATTGATTTATTTTAAATAATTTATTAG
Found at i:1607996 original size:22 final size:22
Alignment explanation
Indices: 1607980--1608022 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1607970 AATTTATTAG
1607980 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
1608002 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
1608023 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:1608003 original size:54 final size:53
Alignment explanation
Indices: 1607937--1608107 Score: 297
Period size: 54 Copynumber: 3.2 Consensus size: 53
1607927 TTAAAATAAA
*
1607937 TTATTATAAAATATGGATTGATTGATTTTAAATAATTTATTAGTATGGATTGAT
1 TTATTTTAAAATATGGATTGATT-ATTTTAAATAATTTATTAGTATGGATTGAT
1607991 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
1 TTATTTTAAAATATGGATTGA-TTATTTTAAATAATTTATTAGTATGGATTGAT
* *
1608045 TTATTTTAAAATATGGATTGATTTTTTTAAATAATTTATTAGTATTGATTGAT
1 TTATTTTAAAATATGGATTGATTATTTTAAATAATTTATTAGTATGGATTGAT
1608098 TTATTTTAAA
1 TTATTTTAAA
1608108 TAATTTTTAT
Statistics
Matches: 113, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
53 40 0.35
54 71 0.63
55 2 0.02
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (53 bp):
TTATTTTAAAATATGGATTGATTATTTTAAATAATTTATTAGTATGGATTGAT
Found at i:1608059 original size:22 final size:21
Alignment explanation
Indices: 1608034--1608075 Score: 75
Period size: 22 Copynumber: 2.0 Consensus size: 21
1608024 AATTTATTAG
1608034 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTT-TTTTAAAA
1608056 TATGGATTGATTTTTTTAAA
1 TATGGATTGATTTTTTTAAA
1608076 TAATTTATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.52
Consensus pattern (21 bp):
TATGGATTGATTTTTTTAAAA
Found at i:1608110 original size:32 final size:31
Alignment explanation
Indices: 1608060--1608399 Score: 178
Period size: 22 Copynumber: 12.5 Consensus size: 31
1608050 TTAAAATATG
1608060 GATTGATTT-TTTTAAATAATTTATTAGTATT
1 GATTGATTTATTTTAAATAATTTATTAGT-TT
1608091 GATTGATTTATTTTAAATAATTT-TTA-TTT
1 GATTGATTTATTTTAAATAATTTATTAGTTT
1608120 AGTATT--TTTATTTT-AA-AA--TA-T-G---
1 -G-ATTGATTTATTTTAAATAATTTATTAGTTT
*
1608142 GATTGATTTATTTTAAATAATTTATTAGTATG
1 GATTGATTTATTTTAAATAATTTATTAGT-TT
1608174 GATTGATTTATTTT-AA-AA--TA-T-G---
1 GATTGATTTATTTTAAATAATTTATTAGTTT
*
1608196 GATTGATTTA-TTTAAATAATTTATTAGTAT
1 GATTGATTTATTTTAAATAATTTATTAGTTT
1608226 G-TTGATTTATTTT-AA-AA--TA-T-G---
1 GATTGATTTATTTTAAATAATTTATTAGTTT
*
1608247 GATTGATTT-TTTTAAATAATTTATTA--TG
1 GATTGATTTATTTTAAATAATTTATTAGTTT
1608275 GATTGATTTATTTT-AA-AA--TA-T-G---
1 GATTGATTTATTTTAAATAATTTATTAGTTT
*
1608297 GATTGATTTATTTTAAATAATTTATTAGTATG
1 GATTGATTTATTTTAAATAATTTATTAGT-TT
1608329 GATTGATTTATTTT-AA-AA--TA-T-G---
1 GATTGATTTATTTTAAATAATTTATTAGTTT
* *
1608351 GATTGCTTTATTTTAAATAATTTATTAGTATG
1 GATTGATTTATTTTAAATAATTTATTAGT-TT
*
1608383 GATTGATTTTTTTTAAA
1 GATTGATTTATTTTAAA
1608400 ATATGGATTG
Statistics
Matches: 248, Mismatches: 3, Indels: 115
0.68 0.01 0.31
Matches are distributed among these distances:
20 3 0.01
21 9 0.04
22 56 0.23
23 10 0.04
24 8 0.03
25 9 0.04
26 12 0.05
27 10 0.04
28 22 0.09
29 24 0.10
30 10 0.04
31 19 0.08
32 56 0.23
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.54
Consensus pattern (31 bp):
GATTGATTTATTTTAAATAATTTATTAGTTT
Found at i:1608158 original size:51 final size:53
Alignment explanation
Indices: 1608091--1608518 Score: 562
Period size: 54 Copynumber: 8.2 Consensus size: 53
1608081 TATTAGTATT
*
1608091 GATTGATTTATTTTAAATAATTT-TTATT-TAGTATT-TTTATTTTAAAATATG
1 GATTGATTTATTTTAAATAATTTATTATTAT-GGATTATTTATTTTAAAATATG
*
1608142 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATG
1 GATTGATTTATTTTAAATAATTTATTATTATGGATT-ATTTATTTTAAAATATG
*
1608196 GATTGATTTA-TTTAAATAATTTATTAGTAT-G-TTGATTTATTTTAAAATATG
1 GATTGATTTATTTTAAATAATTTATTATTATGGATT-ATTTATTTTAAAATATG
1608247 GATTGATTT-TTTTAAATAA--T-TTATTATGGATTGATTTATTTTAAAATATG
1 GATTGATTTATTTTAAATAATTTATTATTATGGATT-ATTTATTTTAAAATATG
*
1608297 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATG
1 GATTGATTTATTTTAAATAATTTATTATTATGGATT-ATTTATTTTAAAATATG
* * *
1608351 GATTGCTTTATTTTAAATAATTTATTAGTATGGATTGATTTTTTTTAAAATATG
1 GATTGATTTATTTTAAATAATTTATTATTATGGATT-ATTTATTTTAAAATATG
* * * * *
1608405 GATTGATTTATTTTAAAT-TTTTATTAGTATTGAAT-TTTATTTTAAAATAAG
1 GATTGATTTATTTTAAATAATTTATTATTATGGATTATTTATTTTAAAATATG
* *
1608456 GATTGATTTATTTT-AA-AATTTATTAATATTGATTGATTTATTTT-AAATATG
1 GATTGATTTATTTTAAATAATTTATTATTATGGATT-ATTTATTTTAAAATATG
1608507 GATTGATTTATT
1 GATTGATTTATT
1608519 ATTGTAGTTG
Statistics
Matches: 347, Mismatches: 16, Indels: 28
0.89 0.04 0.07
Matches are distributed among these distances:
48 6 0.02
49 2 0.01
50 45 0.13
51 117 0.34
52 17 0.05
53 36 0.10
54 124 0.36
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.54
Consensus pattern (53 bp):
GATTGATTTATTTTAAATAATTTATTATTATGGATTATTTATTTTAAAATATG
Found at i:1608202 original size:54 final size:54
Alignment explanation
Indices: 1608091--1608742 Score: 654
Period size: 51 Copynumber: 12.5 Consensus size: 54
1608081 TATTAGTATT
* *
1608091 GATTGATTTATTTTAAATAATTT-TTA-TTTAGTATT--TTTATTTTAAAATATG
1 GATTGATTTATTTTAAATAATTTATTAGTAT-GGATTGATTTATTTTAAAATATG
1608142 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATG
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATG
1608196 GATTGATTTA-TTTAAATAATTTATTAGTAT-G-TTGATTTATTTTAAAATATG
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATG
1608247 GATTGATTT-TTTTAAATAATTTA-T--TATGGATTGATTTATTTTAAAATATG
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATG
1608297 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATG
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATG
* *
1608351 GATTGCTTTATTTTAAATAATTTATTAGTATGGATTGATTTTTTTTAAAATATG
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATG
* * * *
1608405 GATTGATTTATTTTAAAT-TTTTATTAGTATTGAAT--TTTATTTTAAAATAAG
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATG
* *
1608456 GATTGATTTATTTT-AA-AATTTATTAATATTGATTGATTTATTTT-AAATATG
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATG
* * * * *
1608507 GATTGATTTATTATT--GTAGTTGTA-TAG-ATTGATTTATTTTAAATAATTTATTAATATG
1 GATTGATTTATT-TTAAATAATT-TATTAGTATGGATTGA-TTT--AT--TTTA-AAATATG
** ** * ** * * *
1608565 GATTGATTT-TTTTAAA-ATATGGATT-G-ATTTATTTAAATAATTTATTAGTATG
1 GATTGATTTATTTTAAATA-ATTTATTAGTATGGATTGATTTATTTTA-AAATATG
* * * * ***
1608617 GATTGATTTATTTT-AA-AA--TA-T-GGATTGATTTA-TTATTGTAGTTGTATG
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTA-AAATATG
*
1608665 GATTGATTTATTTTAAAT-ATTTATTAGTATAGATTGATTTATTTT-AAA-ATG
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATG
1608716 GATTGATTTATTTTAAATAATTTATTA
1 GATTGATTTATTTTAAATAATTTATTA
1608743 TTGTAGTTGT
Statistics
Matches: 521, Mismatches: 42, Indels: 75
0.82 0.07 0.12
Matches are distributed among these distances:
48 30 0.06
49 13 0.02
50 46 0.09
51 157 0.30
52 59 0.11
53 50 0.10
54 130 0.25
56 6 0.01
57 13 0.02
58 17 0.03
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.54
Consensus pattern (54 bp):
GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATG
Found at i:1608309 original size:190 final size:189
Alignment explanation
Indices: 1607937--1608291 Score: 639
Period size: 190 Copynumber: 1.9 Consensus size: 189
1607927 TTAAAATAAA
1607937 TTATTATAAAATATGGATTGATTGATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TTATTATAAAATATGGATTGATTGATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1608002 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
66 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
*
1608067 TTTTTTAAATAATTTATTAGTATTGATTGATTTATTTTAAATAATTTTTATTTAGTATTT
131 TTTTTTAAATAATTTATTA-TATGGATTGATTTATTTTAAATAATTTTTATTTAGTATTT
* *
1608127 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TTATTATAAAATATGGATTGATTGATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1608192 TATGGATTGATTTA-TTTAAATAATTTATTAGTAT-G-TTGATTTATTTTAAAATATGGATTGAT
66 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1608254 TTTTTTAAATAATTTA-T-TATGGATTGATTTATTTTAAA
131 TTTTTTAAATAATTTATTATATGGATTGATTTATTTTAAA
1608292 ATATGGATTG
Statistics
Matches: 162, Mismatches: 3, Indels: 6
0.95 0.02 0.04
Matches are distributed among these distances:
184 20 0.12
186 1 0.01
187 43 0.27
188 1 0.01
189 20 0.12
190 77 0.48
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.54
Consensus pattern (189 bp):
TTATTATAAAATATGGATTGATTGATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
TTTTTTAAATAATTTATTATATGGATTGATTTATTTTAAATAATTTTTATTTAGTATTT
Found at i:1608344 original size:209 final size:206
Alignment explanation
Indices: 1608091--1608518 Score: 645
Period size: 209 Copynumber: 2.1 Consensus size: 206
1608081 TATTAGTATT
* *
1608091 GATTGATTTATTTTAAATAATTTTTATTTAGTATTTTTATTTTAAAATATGGATTGATTTATTTT
1 GATTGATTTATTTTAAATAATTTTTATATAGGATTTTTATTTTAAAATATGGATTGATTTATTTT
1608156 AAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTA-TTTAAATAATTTAT
66 AAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAT-ATTTAT
*
1608220 TAGTATGTTG-A-TTTATTTTAAAATATGGATTGATTT-TTTTAAATAATTTA-T-TATGGATTG
130 TAGTA--TTGAATTTTATTTTAAAATAAGGATTGATTTATTTT-AA-AATTTATTATATGGATTG
1608280 ATTTATTTTAAAATATG
191 ATTTATTTT-AAATATG
*
1608297 GATTGATTTATTTTAAATAATTTATTAGTAT-GGATTGATTTATTTTAAAATATGGATTGCTTTA
1 GATTGATTTATTTTAAATAATTT-TTA-TATAGGATT--TTTATTTTAAAATATGGATTGATTTA
* *
1608361 TTTTAAATAATTTATTAGTATGGATTGATTTTTTTTAAAATATGGATTGATTTATTTTAAATTTT
62 TTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATATT
*
1608426 TATTAGTATTGAATTTTATTTTAAAATAAGGATTGATTTATTTTAAAATTTATTAATATTGATTG
127 TATTAGTATTGAATTTTATTTTAAAATAAGGATTGATTTATTTTAAAATTTATT-ATATGGATTG
1608491 ATTTATTTTAAATATG
191 ATTTATTTTAAATATG
1608507 GATTGATTTATT
1 GATTGATTTATT
1608519 ATTGTAGTTG
Statistics
Matches: 204, Mismatches: 7, Indels: 18
0.89 0.03 0.08
Matches are distributed among these distances:
206 23 0.11
207 10 0.05
208 9 0.04
209 115 0.56
210 30 0.15
211 17 0.08
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.54
Consensus pattern (206 bp):
GATTGATTTATTTTAAATAATTTTTATATAGGATTTTTATTTTAAAATATGGATTGATTTATTTT
AAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATATTTATT
AGTATTGAATTTTATTTTAAAATAAGGATTGATTTATTTTAAAATTTATTATATGGATTGATTTA
TTTTAAATATG
Found at i:1608350 original size:22 final size:22
Alignment explanation
Indices: 1608325--1608474 Score: 84
Period size: 22 Copynumber: 6.0 Consensus size: 22
1608315 AATTTATTAG
1608325 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
*
1608347 TATGGATTGCTTTATTTTAAATAA
1 TATGGATTGATTTATTTT-AA-AA
* * *
1608371 TTTATTAGTATGGATTGATTTTTTTTAAAA
1 --TA-T-GGATTGATTTA-TT---TTAAAA
*
1608401 TATGGATTGATTTATTTTAAATTTT
1 TATGGATTGATTTATTTTAAA---A
*
1608426 TATTAGTATTGAATTTTATTTTAAAA
1 TA-T-GGATTG-A-TTTATTTTAAAA
*
1608452 TAAGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
1608474 T
1 T
1608475 TTATTAATAT
Statistics
Matches: 98, Mismatches: 13, Indels: 34
0.68 0.09 0.23
Matches are distributed among these distances:
22 35 0.36
23 3 0.03
24 7 0.07
25 4 0.04
26 13 0.13
27 7 0.07
28 10 0.10
29 13 0.13
30 2 0.02
31 2 0.02
32 2 0.02
ACGTcount: A:0.34, C:0.01, G:0.12, T:0.53
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:1608583 original size:21 final size:21
Alignment explanation
Indices: 1608559--1608601 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
1608549 ATAATTTATT
*
1608559 AATATGGATTGATTTTTTTAA
1 AATATGGATTGATTTATTTAA
1608580 AATATGGATTGATTTATTTAA
1 AATATGGATTGATTTATTTAA
1608601 A
1 A
1608602 TAATTTATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (21 bp):
AATATGGATTGATTTATTTAA
Found at i:1608627 original size:18 final size:18
Alignment explanation
Indices: 1608552--1608651 Score: 68
Period size: 22 Copynumber: 5.4 Consensus size: 18
1608542 ATTTTAAATA
1608552 ATTTATTAATATGGATTG
1 ATTTATTAATATGGATTG
*
1608570 ATTTTTTTAAAATATGGATTG
1 A-TTTATT--AATATGGATTG
1608591 ATTTATTTAA-AT--A---
1 ATTTA-TTAATATGGATTG
*
1608604 ATTTATTAGTATGGATTG
1 ATTTATTAATATGGATTG
1608622 ATTTATTTTAAAATATGGATTG
1 ATTTA--TT--AATATGGATTG
1608644 ATTTATTA
1 ATTTATTA
1608652 TTGTAGTTGT
Statistics
Matches: 64, Mismatches: 4, Indels: 28
0.67 0.04 0.29
Matches are distributed among these distances:
12 3 0.05
13 7 0.11
15 1 0.02
16 1 0.02
18 9 0.14
19 7 0.11
20 7 0.11
21 14 0.22
22 15 0.23
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (18 bp):
ATTTATTAATATGGATTG
Found at i:1608631 original size:53 final size:53
Alignment explanation
Indices: 1608533--1608681 Score: 213
Period size: 53 Copynumber: 2.9 Consensus size: 53
1608523 TAGTTGTATA
*
1608533 GATTGATTTATTTTAAATAATTTATTAATATGGATTGATTT-TTTTAAAATATG
1 GATTGATTTA-TTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATG
1608586 GATTGATTTATTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATG
1 GATTGATTTATTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATG
*
1608639 GATTGATTTA-TT--AT--TGTAGTT-GTATGGATTGATTTATTTTAAA
1 GATTGATTTATTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAA
1608682 TATTTATTAG
Statistics
Matches: 92, Mismatches: 2, Indels: 9
0.89 0.02 0.09
Matches are distributed among these distances:
48 25 0.27
49 2 0.02
50 2 0.02
52 31 0.34
53 32 0.35
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (53 bp):
GATTGATTTATTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATG
Found at i:1608792 original size:31 final size:31
Alignment explanation
Indices: 1608757--1608815 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
1608747 AGTTGTATGG
* * *
1608757 ATTATTTAAATTTCAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAGCATTGCAAAACTAAA
1608788 ATTATTTAAATCTCAGCATTGCAAAACT
1 ATTATTTAAATCTCAGCATTGCAAAACT
1608816 CTTTTAAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.42, C:0.12, G:0.07, T:0.39
Consensus pattern (31 bp):
ATTATTTAAATCTCAGCATTGCAAAACTAAA
Found at i:1609164 original size:55 final size:55
Alignment explanation
Indices: 1609000--1609239 Score: 358
Period size: 55 Copynumber: 4.3 Consensus size: 55
1608990 AAACACCACC
*
1609000 TAAGACTCGAACGATCTTCAACAATCGTGTTTGCTCCCTATTTCTTCAGAGAGTA
1 TAAGACTCGAACAATCTTCAACAATCGTGTTTGCTCCCTATTTCTTCAGAGAGTA
*
1609055 TAAGACTCGAACAATCTTCAATCAATCATGTTTGCTCCCTATTTCTTCAGAGAGTA
1 TAAGACTCGAACAATCTTCAA-CAATCGTGTTTGCTCCCTATTTCTTCAGAGAGTA
* * *
1609111 TAAGACTCAAACAATCTTCAACAATCGTGTATGCTCCCTATTTCTTCACAGAGTA
1 TAAGACTCGAACAATCTTCAACAATCGTGTTTGCTCCCTATTTCTTCAGAGAGTA
* *
1609166 TAAGACTCGAACAATCTTCAACAATCGTGTTCGCTCCCTCTTTCTTTCAG-GAAGTA
1 TAAGACTCGAACAATCTTCAACAATCGTGTTTGCTCCCTATTTC-TTCAGAG-AGTA
*
1609222 T-AGAACTCGAATAATCTT
1 TAAG-ACTCGAACAATCTT
1609240 TTGCAAACGA
Statistics
Matches: 169, Mismatches: 12, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
55 94 0.56
56 75 0.44
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.33
Consensus pattern (55 bp):
TAAGACTCGAACAATCTTCAACAATCGTGTTTGCTCCCTATTTCTTCAGAGAGTA
Found at i:1609215 original size:111 final size:109
Alignment explanation
Indices: 1609000--1609351 Score: 381
Period size: 111 Copynumber: 3.2 Consensus size: 109
1608990 AAACACCACC
*
1609000 TAAGACTCGAACGATCTTCAACAATCGTGTTTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGA
1 TAAGACTCGAACAATCTTCAACAATCGTG-TTGCTCCCTATTTCTTCA-AGAGTATAAGACTCGA
* * *
1609065 ACAATCTTCAATCAATCATGTTTGCTCCCTATTTC-TTCA-GAGAGTA
64 ACAATCTTCAA-CAATCGTGTTCGCTCCCTCTTTCTTTCAGGA-AGTA
*
1609111 TAAGACTCAAACAATCTTCAACAATCGTGTATGCTCCCTATTTCTTCACAGAGTATAAGACTCGA
1 TAAGACTCGAACAATCTTCAACAATCGTGT-TGCTCCCTATTTCTTCA-AGAGTATAAGACTCGA
1609176 ACAATCTTCAACAATCGTGTTCGCTCCCTCTTTCTTTCAGGAAGTA
64 ACAATCTTCAACAATCGTGTTCGCTCCCTCTTTCTTTCAGGAAGTA
* *** * * * *
1609222 T-AGAACTCGAATAATCTTTTGCAAACGAGTTCGCTCCCTCTTTCTTTCAGGAAGTAT-AGAACT
1 TAAG-ACTCGAACAATCTTCAACAATCGTGTT-GCTCCCTATTTC-TTCAAG-AGTATAAG-ACT
* *** * *
1609285 CGAATAATCTTTTTCAAACGGGTTCGCTCCCTCTTTCTTTCAGGAAGTA
61 CGAACAATCTTCAACAATCGTGTTCGCTCCCTCTTTCTTTCAGGAAGTA
*
1609334 T-AGAACTCGAATAATCTT
1 TAAG-ACTCGAACAATCTT
1609352 TTGCAAATGG
Statistics
Matches: 212, Mismatches: 21, Indels: 15
0.85 0.08 0.06
Matches are distributed among these distances:
110 24 0.11
111 113 0.53
112 75 0.35
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (109 bp):
TAAGACTCGAACAATCTTCAACAATCGTGTTGCTCCCTATTTCTTCAAGAGTATAAGACTCGAAC
AATCTTCAACAATCGTGTTCGCTCCCTCTTTCTTTCAGGAAGTA
Found at i:1609254 original size:56 final size:56
Alignment explanation
Indices: 1609194--1609407 Score: 401
Period size: 56 Copynumber: 3.8 Consensus size: 56
1609184 CAACAATCGT
*
1609194 GTTCGCTCCCTCTTTCTTTCAGGAAGTATAGAACTCGAATAATCTTTTGCAAACGA
1 GTTCGCTCCCTCTTTCTTTCAGGAAGTATAGAACTCGAATAATCTTTTGCAAACGG
*
1609250 GTTCGCTCCCTCTTTCTTTCAGGAAGTATAGAACTCGAATAATCTTTTTCAAACGG
1 GTTCGCTCCCTCTTTCTTTCAGGAAGTATAGAACTCGAATAATCTTTTGCAAACGG
*
1609306 GTTCGCTCCCTCTTTCTTTCAGGAAGTATAGAACTCGAATAATCTTTTGCAAATGG
1 GTTCGCTCCCTCTTTCTTTCAGGAAGTATAGAACTCGAATAATCTTTTGCAAACGG
1609362 GTTCGCTCCCTCTTTCTTTCAGGAAGTATAGAACTCGAATAATCTT
1 GTTCGCTCCCTCTTTCTTTCAGGAAGTATAGAACTCGAATAATCTT
1609408 CTTTTGCTTC
Statistics
Matches: 154, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 154 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (56 bp):
GTTCGCTCCCTCTTTCTTTCAGGAAGTATAGAACTCGAATAATCTTTTGCAAACGG
Found at i:1620593 original size:32 final size:32
Alignment explanation
Indices: 1620552--1620625 Score: 139
Period size: 32 Copynumber: 2.3 Consensus size: 32
1620542 TGGTATATAC
1620552 CCACATGCTTCGTATGAAATTATAAAACCTAA
1 CCACATGCTTCGTATGAAATTATAAAACCTAA
1620584 CCACATGCTTCGTATGAAATTATAAAACCTAA
1 CCACATGCTTCGTATGAAATTATAAAACCTAA
*
1620616 CCGCATGCTT
1 CCACATGCTT
1620626 TTCTAGTTCT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.36, C:0.24, G:0.11, T:0.28
Consensus pattern (32 bp):
CCACATGCTTCGTATGAAATTATAAAACCTAA
Found at i:1624933 original size:102 final size:103
Alignment explanation
Indices: 1624631--1625108 Score: 612
Period size: 103 Copynumber: 4.7 Consensus size: 103
1624621 TGCTGATCGT
* * *
1624631 TGTTTTGACAGTATCGGTACTGCCTCAGTAGTATCGGTACTACTTCATTATTTTGGGTTTCAGTA
1 TGTTTTGACAGTATCGGTACTGTCTCAGCAGTATCGATACTACTTCATTATTTTGGGTTTCAGTA
* * *
1624696 TCGACATTATATATGGTATCAGTACCATTTTAGCGTTC
66 TCGATATCATATATGGTATCAGTACCATTTTAGCATTC
*
1624734 TGTTTTGACAGTATCGGTACT-TCCTCAGCAGTATCGATACTACTTCATTATTTTGGGATTCAGT
1 TGTTTTGACAGTATCGGTACTGT-CTCAGCAGTATCGATACTACTTCATTATTTTGGGTTTCAGT
* * * *
1624798 ACCGATATCATATATGATATCGGAACCATTTTAGCATTC
65 ATCGATATCATATATGGTATCAGTACCATTTTAGCATTC
* *
1624837 TGTTTTGACAGTATCGGTAATGTCTCAGCAGTAACGATA-TACTTCATTATTTTGGGTTTCAGTA
1 TGTTTTGACAGTATCGGTACTGTCTCAGCAGTATCGATACTACTTCATTATTTTGGGTTTCAGTA
*
1624901 TCGATATCATATATGGTATCAGTACCATTTTAGCATTA
66 TCGATATCATATATGGTATCAGTACCATTTTAGCATTC
* * *
1624939 TATTTTGACAGTATTGGTACT-TCCTCA-TAGTATCGATACTACTTCATTATTTTGGGTTTCAGT
1 TGTTTTGACAGTATCGGTACTGT-CTCAGCAGTATCGATACTACTTCATTATTTTGGGTTTCAGT
* * *
1625002 CTCGATAT--TATATGGTATC-GTAACA-TTTAGCAATC
65 ATCGATATCATATATGGTATCAGTACCATTTTAGCATTC
* * * * * * * * * *
1625037 TGATTTGACAGTATCGGTACTGCCTCAACAATATCGACAGTGCTTTATTATTTTCGTTTTCAGTA
1 TGTTTTGACAGTATCGGTACTGTCTCAGCAGTATCGATACTACTTCATTATTTTGGGTTTCAGTA
1625102 TCGATAT
66 TCGATAT
1625109 ATGTATCGAT
Statistics
Matches: 328, Mismatches: 41, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
98 30 0.09
99 40 0.12
100 11 0.03
101 10 0.03
102 110 0.34
103 126 0.38
104 1 0.00
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.40
Consensus pattern (103 bp):
TGTTTTGACAGTATCGGTACTGTCTCAGCAGTATCGATACTACTTCATTATTTTGGGTTTCAGTA
TCGATATCATATATGGTATCAGTACCATTTTAGCATTC
Found at i:1625652 original size:18 final size:19
Alignment explanation
Indices: 1625631--1625671 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
1625621 GTAGAAATAA
1625631 TCTGAAATGAAT-AAATTG
1 TCTGAAATGAATAAAATTG
*
1625649 TCTGGAATGAATAAAATTG
1 TCTGAAATGAATAAAATTG
1625668 TCTG
1 TCTG
1625672 TTATTTATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.39, C:0.07, G:0.20, T:0.34
Consensus pattern (19 bp):
TCTGAAATGAATAAAATTG
Found at i:1626349 original size:193 final size:189
Alignment explanation
Indices: 1625994--1626377 Score: 682
Period size: 193 Copynumber: 2.0 Consensus size: 189
1625984 TCATCAGGTT
1625994 TTTTTCTTTAACCCTTTTTATTCATAAACCATATTGATATTCATTTCAAAATAGCAAAGTTTTAT
1 TTTTTCTTTAACCCTTTTTATTCATAAACCATATTGATATTCATTTCAAAATAGCAAAGTTTTAT
*
1626059 AATCTTATATATTGTTTATATACTTCAATTTTCTGCAACAAACCAAATGACCTCAGTGGTTTAAA
66 AATCTTATATATTGTTTATATACTTCAATTTTCTGCAACAAACCAAACGACCTCAGTGGTTTAAA
1626124 GAATTATTGTTATCCCTTGAGGTCTTAGGCTCAATCAATGTGTATTCAGGGTATAAGTG
131 GAATTATTGTTATCCCTTGAGGTCTTAGGCTCAATCAATGTGTATTCAGGGTATAAGTG
1626183 TTTTTCTTTAACCCTTTTTATTCATAAACCATATTTGATATTCTCATTTCAAAATAGCAAAGTTT
1 TTTTTCTTTAACCCTTTTTATTCATAAACCATA-TTGATA-T-TCATTTCAAAATAGCAAAGTTT
*
1626248 TATAATCTTATATATTCATGTTTATATACTTCAATTTTCTGC-ACGAACCAAACGACCTCAGTGG
63 TATAATCTTATATA-T--TGTTTATATACTTCAATTTTCTGCAACAAACCAAACGACCTCAGTGG
1626312 -TTAAAGAATTATTGTTATCCCTTGAGGTCTTAGGCTCAATCAATGTGTATTCAGGGTATAAGTG
125 TTTAAAGAATTATTGTTATCCCTTGAGGTCTTAGGCTCAATCAATGTGTATTCAGGGTATAAGTG
1626376 TT
1 TT
1626378 CATTGTGGAA
Statistics
Matches: 187, Mismatches: 2, Indels: 8
0.95 0.01 0.04
Matches are distributed among these distances:
189 33 0.18
190 6 0.03
191 1 0.01
192 36 0.19
193 67 0.36
194 20 0.11
195 24 0.13
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.41
Consensus pattern (189 bp):
TTTTTCTTTAACCCTTTTTATTCATAAACCATATTGATATTCATTTCAAAATAGCAAAGTTTTAT
AATCTTATATATTGTTTATATACTTCAATTTTCTGCAACAAACCAAACGACCTCAGTGGTTTAAA
GAATTATTGTTATCCCTTGAGGTCTTAGGCTCAATCAATGTGTATTCAGGGTATAAGTG
Found at i:1627984 original size:96 final size:99
Alignment explanation
Indices: 1627854--1628180 Score: 407
Period size: 99 Copynumber: 3.3 Consensus size: 99
1627844 TAGTATCGGC
*
1627854 ACTACTTCATTATTTTAGGTTTTAGTATCGATATCATATATGGTATCGGTACCA-TTTAGCATT-
1 ACTACTTCATTATTTT-GGGTTTAGTATCGATATCATATATGGTATCGGTACCATTTTAGCATTC
*
1627917 TGTTTGACAGTATCAATACTTCCTCAGCAG-TCGAT
65 T-TTTGACAGTATCGATACTTCCTCAGCAGATCGAT
* *
1627952 ACTACTTCATTA-TTTGGGTTTAGTATCGATATCATAGATGGTATCGATACCATTTTAGCATTCT
1 ACTACTTCATTATTTTGGGTTTAGTATCGATATCATATATGGTATCGGTACCATTTTAGCATTC-
*
1628016 ATTTTGACAGAATCGATA-TTGCCTCAGCAGTATCGAT
65 -TTTTGACAGTATCGATACTT-CCTCAGCAG-ATCGAT
* * *
1628053 ACTGCTTCATTATTCTGGGTTTAGTATCG--ATCATATATGGTATCAGTACCATTTTAGCATTCC
1 ACTACTTCATTATTTTGGGTTTAGTATCGATATCATATATGGTATCGGTACCATTTTAGCATT-C
* * * *
1628116 TTTTGACAGTATCGGTACTGCCTCATCAGTATCGGT
65 TTTTGACAGTATCGATACTTCCTCAGCAG-ATCGAT
*
1628152 ACTGCTTCATTATTTTGGGTTTCAGTATC
1 ACTACTTCATTATTTTGGGTTT-AGTATC
1628181 AATACTGATT
Statistics
Matches: 202, Mismatches: 16, Indels: 20
0.85 0.07 0.08
Matches are distributed among these distances:
96 34 0.17
97 12 0.06
98 14 0.07
99 73 0.36
100 37 0.18
101 17 0.08
102 15 0.07
ACGTcount: A:0.25, C:0.18, G:0.17, T:0.40
Consensus pattern (99 bp):
ACTACTTCATTATTTTGGGTTTAGTATCGATATCATATATGGTATCGGTACCATTTTAGCATTCT
TTTGACAGTATCGATACTTCCTCAGCAGATCGAT
Found at i:1628147 original size:20 final size:20
Alignment explanation
Indices: 1628122--1628161 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
1628112 TTCCTTTTGA
1628122 CAGTATCGGTACTGCCTCAT
1 CAGTATCGGTACTGCCTCAT
*
1628142 CAGTATCGGTACTGCTTCAT
1 CAGTATCGGTACTGCCTCAT
1628162 TATTTTGGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.20, C:0.28, G:0.20, T:0.33
Consensus pattern (20 bp):
CAGTATCGGTACTGCCTCAT
Found at i:1634992 original size:20 final size:20
Alignment explanation
Indices: 1634964--1635035 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
1634954 CTGTGCACTT
1634964 AGTATCGATACTATTCATCC
1 AGTATCGATACTATTCATCC
* * *
1634984 AGTACCGATAATGTTCTTGAT-C
1 AGTATCGATACTATTC---ATCC
*
1635006 AGTATCGATACTATTCATCA
1 AGTATCGATACTATTCATCC
*
1635026 AGTAACGATA
1 AGTATCGATA
1635036 TTGTTATTGC
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
19 2 0.05
20 22 0.55
22 14 0.35
23 2 0.05
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.33
Consensus pattern (20 bp):
AGTATCGATACTATTCATCC
Found at i:1635586 original size:15 final size:15
Alignment explanation
Indices: 1635568--1635602 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
1635558 CCATTATATT
*
1635568 ATATTATATTAACAA
1 ATATTATATTAAAAA
1635583 ATATTATATTAAAAA
1 ATATTATATTAAAAA
1635598 ATATT
1 ATATT
1635603 TAGTTATAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (15 bp):
ATATTATATTAAAAA
Found at i:1637471 original size:103 final size:103
Alignment explanation
Indices: 1637291--1637771 Score: 705
Period size: 103 Copynumber: 4.7 Consensus size: 103
1637281 ATCGATACAT
* ** * *
1637291 ATATCGATACTGAAACCCAAAATAATGAAGCAGTACCGATACAACTGAGGCAA-TACCGATATTG
1 ATATCGATACTGAAACCCAAAATAATGAAGTAGTACCGATACTGCTGAGG-AAGTATCGATACTG
* * **
1637355 TCAAAACATAATGCTAAAATGATATTGATACCATATATG
65 TCAAAACAGAATGCTAAAATGGTACCGATACCATATATG
* *
1637394 ATATCGATACTGAAACCCAAAATAATGAAGTAGTATCGATACTGCTGAGGAAGTATTGATACTGT
1 ATATCGATACTGAAACCCAAAATAATGAAGTAGTACCGATACTGCTGAGGAAGTATCGATACTGT
1637459 CAAAACAGAATGCTAAAATGGTACCGATACCAT-TATG
66 CAAAACAGAATGCTAAAATGGTACCGATACCATATATG
* * * *
1637496 ATATCGATATTGAAACCCAAAATAATGAAGCATTACCGATACTGCTGAGGTAGTATCGATACTGT
1 ATATCGATACTGAAACCCAAAATAATGAAGTAGTACCGATACTGCTGAGGAAGTATCGATACTGT
* * *
1637561 CAAAACATAATACTAAAATGGTACCGATACCATAAATG
66 CAAAACAGAATGCTAAAATGGTACCGATACCATATATG
* *
1637599 ATATCGATACTGAAACCCAAAATAGTGAAGTAGTACCGATATTGCTGAGGAAGTATCGATACTGT
1 ATATCGATACTGAAACCCAAAATAATGAAGTAGTACCGATACTGCTGAGGAAGTATCGATACTGT
1637664 CAAAACAGAATGCTAAAATGGTACCGATACCATATATG
66 CAAAACAGAATGCTAAAATGGTACCGATACCATATATG
* * * * * *
1637702 ATTTCGATACTGAAACCCAAAATAATGAAGTAGTACTGATAATGCTGAGGCAGTACCGATATTGT
1 ATATCGATACTGAAACCCAAAATAATGAAGTAGTACCGATACTGCTGAGGAAGTATCGATACTGT
1637767 CAAAA
66 CAAAA
1637772 AAAATGGTCA
Statistics
Matches: 340, Mismatches: 36, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
102 96 0.28
103 244 0.72
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.25
Consensus pattern (103 bp):
ATATCGATACTGAAACCCAAAATAATGAAGTAGTACCGATACTGCTGAGGAAGTATCGATACTGT
CAAAACAGAATGCTAAAATGGTACCGATACCATATATG
Found at i:1637608 original size:51 final size:51
Alignment explanation
Indices: 1637451--1637713 Score: 145
Period size: 53 Copynumber: 5.1 Consensus size: 51
1637441 AGGAAGTATT
* * *
1637451 GATACTGTCAAAACAGAATGCTAAAATGGTACCGATACCAT-TATGATATC
1 GATACTGTCAAAACAAAATACTAAAATGGTACCGATACCATAAATGATATC
* * * * * *
1637501 GATA-T-TGAAACCCAAAATAATGAAGCAT--TACCGATACTGC-T-GAGGTAGTATC
1 GATACTGTCAAA-ACAAAATACT-AA-AATGGTACCGATAC--CATAAATG-A-TATC
*
1637553 GATACTGTCAAAACATAATACTAAAATGGTACCGATACCATAAATGATATC
1 GATACTGTCAAAACAAAATACTAAAATGGTACCGATACCATAAATGATATC
* * * * * *
1637604 GATACTG--AAACCCAAAATAGTGAAGTAGTACCGATATTGC-TGAGGAA-G-TATC
1 GATACTGTCAAA-ACAAAATACTAAAATGGTACCGATA--CCAT-A--AATGATATC
* * * *
1637656 GATACTGTCAAAACAGAATGCTAAAATGGTACCGATACCATATATGATTTC
1 GATACTGTCAAAACAAAATACTAAAATGGTACCGATACCATAAATGATATC
1637707 GATACTG
1 GATACTG
1637714 AAACCCAAAA
Statistics
Matches: 157, Mismatches: 32, Indels: 47
0.67 0.14 0.20
Matches are distributed among these distances:
48 4 0.03
49 20 0.13
50 29 0.18
51 31 0.20
52 26 0.17
53 38 0.24
54 9 0.06
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.25
Consensus pattern (51 bp):
GATACTGTCAAAACAAAATACTAAAATGGTACCGATACCATAAATGATATC
Found at i:1637647 original size:205 final size:206
Alignment explanation
Indices: 1637291--1637771 Score: 766
Period size: 205 Copynumber: 2.3 Consensus size: 206
1637281 ATCGATACAT
** *
1637291 ATATCGATACTGAAACCCAAAATAATGAAGCAGTACCGATACAACTGAGGCAATACCGATATTGT
1 ATATCGATACTGAAACCCAAAATAATGAAGCAGTACCGATACTGCTGAGGCAGTACCGATATTGT
* ** *
1637356 CAAAACATAATGCTAAAATGATATTGATACCATATATGATATCGATACTGAAACCCAAAATAATG
66 CAAAACATAATACTAAAATGATACCGATACCATAAATGATATCGATACTGAAACCCAAAATAATG
* *
1637421 AAGTAGTATCGATACTGCTGAGGAAGTATTGATACTGTCAAAACAGAATGCTAAAATGGTACCGA
131 AAGTAGTACCGATACTGCTGAGGAAGTATCGATACTGTCAAAACAGAATGCTAAAATGGTACCGA
1637486 TACCAT-TATG
196 TACCATATATG
* * * * *
1637496 ATATCGATATTGAAACCCAAAATAATGAAGCATTACCGATACTGCTGAGGTAGTATCGATACTGT
1 ATATCGATACTGAAACCCAAAATAATGAAGCAGTACCGATACTGCTGAGGCAGTACCGATATTGT
* *
1637561 CAAAACATAATACTAAAATGGTACCGATACCATAAATGATATCGATACTGAAACCCAAAATAGTG
66 CAAAACATAATACTAAAATGATACCGATACCATAAATGATATCGATACTGAAACCCAAAATAATG
*
1637626 AAGTAGTACCGATATTGCTGAGGAAGTATCGATACTGTCAAAACAGAATGCTAAAATGGTACCGA
131 AAGTAGTACCGATACTGCTGAGGAAGTATCGATACTGTCAAAACAGAATGCTAAAATGGTACCGA
1637691 TACCATATATG
196 TACCATATATG
* * * *
1637702 ATTTCGATACTGAAACCCAAAATAATGAAGTAGTACTGATAATGCTGAGGCAGTACCGATATTGT
1 ATATCGATACTGAAACCCAAAATAATGAAGCAGTACCGATACTGCTGAGGCAGTACCGATATTGT
1637767 CAAAA
66 CAAAA
1637772 AAAATGGTCA
Statistics
Matches: 249, Mismatches: 26, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
205 184 0.74
206 65 0.26
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.25
Consensus pattern (206 bp):
ATATCGATACTGAAACCCAAAATAATGAAGCAGTACCGATACTGCTGAGGCAGTACCGATATTGT
CAAAACATAATACTAAAATGATACCGATACCATAAATGATATCGATACTGAAACCCAAAATAATG
AAGTAGTACCGATACTGCTGAGGAAGTATCGATACTGTCAAAACAGAATGCTAAAATGGTACCGA
TACCATATATG
Found at i:1638271 original size:11 final size:11
Alignment explanation
Indices: 1638247--1638280 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
1638237 CAGGGGTCGA
* *
1638247 AACTCGAAAGC
1 AACTCAAAACC
1638258 AACTCAAAACC
1 AACTCAAAACC
1638269 AACTCAAAACC
1 AACTCAAAACC
1638280 A
1 A
1638281 TGCAAAACAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.53, C:0.32, G:0.06, T:0.09
Consensus pattern (11 bp):
AACTCAAAACC
Found at i:1647253 original size:19 final size:21
Alignment explanation
Indices: 1647216--1647258 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
1647206 TAACTTTTTC
1647216 TTTTATCTTTCATTATTAA-T
1 TTTTATCTTTCATTATTAACT
*
1647236 TTTTCTCTTTCATT-TTAACT
1 TTTTATCTTTCATTATTAACT
1647256 TTT
1 TTT
1647259 ACCTTTTCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.19, C:0.14, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTATCTTTCATTATTAACT
Found at i:1647264 original size:19 final size:20
Alignment explanation
Indices: 1647215--1647264 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
1647205 TTAACTTTTT
*
1647215 CTTTTATCTTTCATTATTAA
1 CTTTTACCTTTCATTATTAA
*
1647235 -TTTTTCTCTTTCATT-TTAA
1 CTTTTAC-CTTTCATTATTAA
1647254 CTTTTACCTTT
1 CTTTTACCTTT
1647265 TCTCTTTCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.64
Consensus pattern (20 bp):
CTTTTACCTTTCATTATTAA
Found at i:1651118 original size:17 final size:16
Alignment explanation
Indices: 1651087--1651120 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
1651077 CACGTGAGGA
1651087 TTATTTTCTTCTTATT
1 TTATTTTCTTCTTATT
*
1651103 TTATTTATCTTTTTATT
1 TTATTT-TCTTCTTATT
1651120 T
1 T
1651121 ACTGTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTTTCTTCTTATT
Found at i:1654598 original size:20 final size:20
Alignment explanation
Indices: 1654557--1654613 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
1654547 TTCTAGCTGG
1654557 GGAGCCGTTGGGGATG-TTT
1 GGAGCCGTTGGGGATGTTTT
1654576 GGAGCCGTTGGGGATGTTTT
1 GGAGCCGTTGGGGATGTTTT
1654596 GGAGCCGTTGGGGATGTT
1 GGAGCCGTTGGGGATGTT
1654614 CTCTGCAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 16 0.43
20 21 0.57
ACGTcount: A:0.11, C:0.11, G:0.47, T:0.32
Consensus pattern (20 bp):
GGAGCCGTTGGGGATGTTTT
Found at i:1664344 original size:12 final size:12
Alignment explanation
Indices: 1664320--1664358 Score: 69
Period size: 12 Copynumber: 3.2 Consensus size: 12
1664310 ACCTTTCTTG
1664320 CTCTTCTTCGCTT
1 CTCTTC-TCGCTT
1664333 CTCTTCTCGCTT
1 CTCTTCTCGCTT
1664345 CTCTTCTCGCTT
1 CTCTTCTCGCTT
1664357 CT
1 CT
1664359 TTAACCAACG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 20 0.77
13 6 0.23
ACGTcount: A:0.00, C:0.41, G:0.08, T:0.51
Consensus pattern (12 bp):
CTCTTCTCGCTT
Found at i:1664507 original size:2 final size:2
Alignment explanation
Indices: 1664500--1664581 Score: 157
Period size: 2 Copynumber: 41.5 Consensus size: 2
1664490 CCAAACATAA
1664500 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
1664542 AT AT AT AT AT AT AT AT AT AT AT A- 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 AT AT AT A
1664582 CTTATTGCAT
Statistics
Matches: 79, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
1 1 0.01
2 78 0.99
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1664985 original size:23 final size:23
Alignment explanation
Indices: 1664959--1665029 Score: 79
Period size: 23 Copynumber: 3.1 Consensus size: 23
1664949 GTCACCACAT
*
1664959 CACGTATAAATGCACCGAAGTGC
1 CACGTAGAAATGCACCGAAGTGC
* * * *
1664982 CACGTAGAATTGCACCTAAGCGT
1 CACGTAGAAATGCACCGAAGTGC
* *
1665005 CGCGTAGAAATACACCGAAGTGC
1 CACGTAGAAATGCACCGAAGTGC
1665028 CA
1 CA
1665030 TATAAGATGT
Statistics
Matches: 36, Mismatches: 12, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.34, C:0.27, G:0.23, T:0.17
Consensus pattern (23 bp):
CACGTAGAAATGCACCGAAGTGC
Found at i:1665312 original size:30 final size:29
Alignment explanation
Indices: 1665259--1665317 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
1665249 TGTAAACATA
* *
1665259 TCACATATTCATATAAACTCGTAGCTTCAT
1 TCACATATACATATAAACACGTAG-TTCAT
* *
1665289 TCACATATACATGTAATCACGTAGTTCAT
1 TCACATATACATATAAACACGTAGTTCAT
1665318 GTAAATTCTC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 5 0.20
30 20 0.80
ACGTcount: A:0.34, C:0.22, G:0.08, T:0.36
Consensus pattern (29 bp):
TCACATATACATATAAACACGTAGTTCAT
Found at i:1668826 original size:2 final size:2
Alignment explanation
Indices: 1668819--1668847 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1668809 GCATCCAAAC
1668819 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 A
1668848 CTTATTGCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1669261 original size:23 final size:23
Alignment explanation
Indices: 1669232--1669295 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 23
1669222 CAGCTCGTAT
*
1669232 AAATGCACCAAAGTGCCACGTAG
1 AAATGCACCAAAGTGCCACATAG
* * * *
1669255 AATTGCACCTAAGTGTCGCATAG
1 AAATGCACCAAAGTGCCACATAG
1669278 AAATGCACCAAAGTGCCA
1 AAATGCACCAAAGTGCCA
1669296 TATAATATGT
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.38, C:0.25, G:0.20, T:0.17
Consensus pattern (23 bp):
AAATGCACCAAAGTGCCACATAG
Found at i:1669578 original size:30 final size:29
Alignment explanation
Indices: 1669525--1669583 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
1669515 TGTAAACATA
* *
1669525 TCACATATTCATATAAACTCGTAGCTTCAT
1 TCACATATACATATAAACACGTAG-TTCAT
* *
1669555 TCACATATACATGTAATCACGTAGTTCAT
1 TCACATATACATATAAACACGTAGTTCAT
1669584 GTAAATTCTC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 5 0.20
30 20 0.80
ACGTcount: A:0.34, C:0.22, G:0.08, T:0.36
Consensus pattern (29 bp):
TCACATATACATATAAACACGTAGTTCAT
Found at i:1677048 original size:39 final size:39
Alignment explanation
Indices: 1676996--1677070 Score: 150
Period size: 39 Copynumber: 1.9 Consensus size: 39
1676986 AGCTGCATTG
1676996 TATTATTAGGTTAAGTTCTTGATTATCATGTATTATCAT
1 TATTATTAGGTTAAGTTCTTGATTATCATGTATTATCAT
1677035 TATTATTAGGTTAAGTTCTTGATTATCATGTATTAT
1 TATTATTAGGTTAAGTTCTTGATTATCATGTATTAT
1677071 TCTCACTCTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.28, C:0.07, G:0.13, T:0.52
Consensus pattern (39 bp):
TATTATTAGGTTAAGTTCTTGATTATCATGTATTATCAT
Found at i:1677073 original size:20 final size:20
Alignment explanation
Indices: 1677011--1677073 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
1677001 TTAGGTTAAG
1677011 TTCTTGATTATCATGTATTA
1 TTCTTGATTATCATGTATTA
* * *
1677031 -TCATT-ATTATTAGGT-TAA
1 TTC-TTGATTATCATGTATTA
1677049 GTTCTTGATTATCATGTATTA
1 -TTCTTGATTATCATGTATTA
1677070 TTCT
1 TTCT
1677074 CACTCTCTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 10
0.67 0.12 0.21
Matches are distributed among these distances:
18 2 0.06
19 12 0.38
20 16 0.50
21 2 0.06
ACGTcount: A:0.25, C:0.10, G:0.11, T:0.54
Consensus pattern (20 bp):
TTCTTGATTATCATGTATTA
Found at i:1678473 original size:20 final size:17
Alignment explanation
Indices: 1678422--1678461 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
1678412 TATTTTCTTT
1678422 AACCATTTTTATTCATA
1 AACCATTTTTATTCATA
*
1678439 AACCCTTTTTATTCATA
1 AACCATTTTTATTCATA
1678456 AACCAT
1 AACCAT
1678462 ATTTGATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (17 bp):
AACCATTTTTATTCATA
Found at i:1683619 original size:23 final size:23
Alignment explanation
Indices: 1683593--1683659 Score: 89
Period size: 23 Copynumber: 2.9 Consensus size: 23
1683583 ATCGATTCCC
1683593 TCAAGGAGGGAATCGGTTCCCAT
1 TCAAGGAGGGAATCGGTTCCCAT
* *
1683616 TCAAAGAGGGAATCGGTTCCCCT
1 TCAAGGAGGGAATCGGTTCCCAT
* * *
1683639 TCAAGGGGGGTATCGATTCCC
1 TCAAGGAGGGAATCGGTTCCC
1683660 TCTTCACTAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.24, C:0.24, G:0.30, T:0.22
Consensus pattern (23 bp):
TCAAGGAGGGAATCGGTTCCCAT
Found at i:1692002 original size:14 final size:14
Alignment explanation
Indices: 1691979--1692010 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
1691969 CGTTTGTGAA
*
1691979 CGTTCTGTTATGTT
1 CGTTCGGTTATGTT
1691993 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
1692007 CGTT
1 CGTT
1692011 TATGTTCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.06, C:0.16, G:0.25, T:0.53
Consensus pattern (14 bp):
CGTTCGGTTATGTT
Found at i:1693207 original size:16 final size:16
Alignment explanation
Indices: 1693186--1693216 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
1693176 CAAAAAAAAT
1693186 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
1693202 TGTTCGTTTATGTTC
1 TGTTCGTTTATGTTC
1693217 ATTTATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.13, G:0.23, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:1694390 original size:20 final size:20
Alignment explanation
Indices: 1694341--1694390 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
1694331 AAATATTTTT
1694341 GTACCGATACTGCTATAACA
1 GTACCGATACTGCTATAACA
* *
1694361 GTACCAATACTGTTA-AATCA
1 GTACCGATACTGCTATAA-CA
*
1694381 GTATCGATAC
1 GTACCGATAC
1694391 ATATATCGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (20 bp):
GTACCGATACTGCTATAACA
Found at i:1694558 original size:103 final size:103
Alignment explanation
Indices: 1694426--1694639 Score: 356
Period size: 103 Copynumber: 2.1 Consensus size: 103
1694416 AATGAAGCAT
* * *
1694426 TACCGATACTGTCAAAACATAATGCTAAAATGATATCGATACCATATATGATATCGATATTGAAA
1 TACCGATACTGTCAAAACAGAATGCTAAAATGATATCGATACCATATATGATATAGATACTGAAA
* *
1694491 CCCAAAATAATGAAGTAGTACCGATACTGCTGATGAAG
66 CCCAAAATAATGAAGCAGTACCGATACTGCTGAGGAAG
*
1694529 TACCGATACTGTCAAAACAGAATGCTAAAATGATATCGATATCATATATGATATAGATACTGAAA
1 TACCGATACTGTCAAAACAGAATGCTAAAATGATATCGATACCATATATGATATAGATACTGAAA
* *
1694594 CCCAAAATAATGAAGCAGTATCGATACTGCTGAGGCAG
66 CCCAAAATAATGAAGCAGTACCGATACTGCTGAGGAAG
1694632 TACCGATA
1 TACCGATA
1694640 TTGCTGAGGC
Statistics
Matches: 103, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
103 103 1.00
ACGTcount: A:0.42, C:0.17, G:0.16, T:0.25
Consensus pattern (103 bp):
TACCGATACTGTCAAAACAGAATGCTAAAATGATATCGATACCATATATGATATAGATACTGAAA
CCCAAAATAATGAAGCAGTACCGATACTGCTGAGGAAG
Found at i:1694633 original size:20 final size:20
Alignment explanation
Indices: 1694608--1694682 Score: 132
Period size: 20 Copynumber: 3.8 Consensus size: 20
1694598 AAATAATGAA
*
1694608 GCAGTATCGATACTGCTGAG
1 GCAGTACCGATACTGCTGAG
*
1694628 GCAGTACCGATATTGCTGAG
1 GCAGTACCGATACTGCTGAG
1694648 GCAGTACCGATACTGCTGAG
1 GCAGTACCGATACTGCTGAG
1694668 GCAGTACCGATACTG
1 GCAGTACCGATACTG
1694683 TCAAAACAGA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 52 1.00
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (20 bp):
GCAGTACCGATACTGCTGAG
Found at i:1694765 original size:143 final size:143
Alignment explanation
Indices: 1694507--1694778 Score: 472
Period size: 143 Copynumber: 1.9 Consensus size: 143
1694497 ATAATGAAGT
* *
1694507 AGTACCGATACTGCTGATGAAGTACCGATACTGTCAAAACAGAATGCTAAAATGATATCGATATC
1 AGTACCGATACTGCTGAGGAAGTACCGATACTGTCAAAACAGAATGCTAAAATGATATCGATACC
* *
1694572 ATATATGATATAGATACTGAAACCCAAAATAATGAAGCAGTATCGATACTGCTGAGGCAGTACCG
66 ATATATGATATAGATACTGAAACCCAAAATAATGAAGCAGTACCGATACTGCTGAGGAAGTACCG
1694637 ATATTGCTGAGGC
131 ATATTGCTGAGGC
*
1694650 AGTACCGATACTGCTGAGGCAGTACCGATACTGTCAAAACAGAATGCTAAAATGATATCGATACC
1 AGTACCGATACTGCTGAGGAAGTACCGATACTGTCAAAACAGAATGCTAAAATGATATCGATACC
* * *
1694715 ATATATGATATCGATACTGAAACTCAAAATAATGAAGTAGTACCGATACTGCTGAGGAAGTACC
66 ATATATGATATAGATACTGAAACCCAAAATAATGAAGCAGTACCGATACTGCTGAGGAAGTACC
1694779 AATACTATTA
Statistics
Matches: 121, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
143 121 1.00
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (143 bp):
AGTACCGATACTGCTGAGGAAGTACCGATACTGTCAAAACAGAATGCTAAAATGATATCGATACC
ATATATGATATAGATACTGAAACCCAAAATAATGAAGCAGTACCGATACTGCTGAGGAAGTACCG
ATATTGCTGAGGC
Found at i:1694829 original size:103 final size:103
Alignment explanation
Indices: 1694650--1694881 Score: 367
Period size: 103 Copynumber: 2.3 Consensus size: 103
1694640 TTGCTGAGGC
* *
1694650 AGTACCGATACTGCTGAGGCAGTACCGATACTGTCAAAACAGAATGCTAAAATGATATCGATACC
1 AGTACCGATACTGCTGAGGCAGTACCAATACTATCAAAACAGAATGCTAAAATGATATCGATACC
*
1694715 ATATATGATATCGATACTGAAA-CTCAAAATAATGAAGT
66 ATATATGATATCAATACTGAAACCT-AAAATAATGAAGT
* * * *
1694753 AGTACCGATACTGCTGAGGAAGTACCAATACTATTAAAACAGAATGCTAAAATGGTATTGATACC
1 AGTACCGATACTGCTGAGGCAGTACCAATACTATCAAAACAGAATGCTAAAATGATATCGATACC
1694818 ATATATGATATCAATACTGAAACCTAAAATAATGAAGT
66 ATATATGATATCAATACTGAAACCTAAAATAATGAAGT
**
1694856 AGTATTGATACTGCTGAGGCAGTACC
1 AGTACCGATACTGCTGAGGCAGTACC
1694882 GATATTGTCA
Statistics
Matches: 118, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
103 116 0.98
104 2 0.02
ACGTcount: A:0.41, C:0.16, G:0.18, T:0.25
Consensus pattern (103 bp):
AGTACCGATACTGCTGAGGCAGTACCAATACTATCAAAACAGAATGCTAAAATGATATCGATACC
ATATATGATATCAATACTGAAACCTAAAATAATGAAGT
Found at i:1694868 original size:246 final size:246
Alignment explanation
Indices: 1694426--1694888 Score: 793
Period size: 246 Copynumber: 1.9 Consensus size: 246
1694416 AATGAAGCAT
* *
1694426 TACCGATACTGTCAAAACATAATGCTAAAATGATATCGATACCATATATGATATCGATATTGAAA
1 TACCGATACTGTCAAAACAGAATGCTAAAATGATATCGATACCATATATGATATCGATACTGAAA
* * *
1694491 CCCAAAATAATGAAGTAGTACCGATACTGCTGATGAAGTACCGATACTGTCAAAACAGAATGCTA
66 CCCAAAATAATGAAGTAGTACCGATACTGCTGAGGAAGTACCAATACTATCAAAACAGAATGCTA
*
1694556 AAATGATATCGATATCATATATGATATAGATACTGAAACCCAAAATAATGAAGCAGTATCGATAC
131 AAATGATATCGATACCATATATGATATAGATACTGAAACCCAAAATAATGAAGCAGTATCGATAC
1694621 TGCTGAGGCAGTACCGATATTGCTGAGGCAGTACCGATACTGCTGAGGCAG
196 TGCTGAGGCAGTACCGATATTGCTGAGGCAGTACCGATACTGCTGAGGCAG
1694672 TACCGATACTGTCAAAACAGAATGCTAAAATGATATCGATACCATATATGATATCGATACTGAAA
1 TACCGATACTGTCAAAACAGAATGCTAAAATGATATCGATACCATATATGATATCGATACTGAAA
* *
1694737 CTCAAAATAATGAAGTAGTACCGATACTGCTGAGGAAGTACCAATACTATTAAAACAGAATGCTA
66 CCCAAAATAATGAAGTAGTACCGATACTGCTGAGGAAGTACCAATACTATCAAAACAGAATGCTA
* * * * *
1694802 AAATGGTATTGATACCATATATGATATCA-ATACTGAAACCTAAAATAATGAAGTAGTATTGATA
131 AAATGATATCGATACCATATATGATAT-AGATACTGAAACCCAAAATAATGAAGCAGTATCGATA
1694866 CTGCTGAGGCAGTACCGATATTG
195 CTGCTGAGGCAGTACCGATATTG
1694889 TCAAAAAAGT
Statistics
Matches: 203, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
246 202 1.00
247 1 0.00
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.26
Consensus pattern (246 bp):
TACCGATACTGTCAAAACAGAATGCTAAAATGATATCGATACCATATATGATATCGATACTGAAA
CCCAAAATAATGAAGTAGTACCGATACTGCTGAGGAAGTACCAATACTATCAAAACAGAATGCTA
AAATGATATCGATACCATATATGATATAGATACTGAAACCCAAAATAATGAAGCAGTATCGATAC
TGCTGAGGCAGTACCGATATTGCTGAGGCAGTACCGATACTGCTGAGGCAG
Found at i:1705515 original size:14 final size:14
Alignment explanation
Indices: 1705481--1705533 Score: 65
Period size: 14 Copynumber: 3.9 Consensus size: 14
1705471 TTGTACTTTT
*
1705481 ATACATATCATATC
1 ATACATTTCATATC
1705495 ATACATTTCATATC
1 ATACATTTCATATC
1705509 ATACATTT-ATA-C
1 ATACATTTCATATC
*
1705521 ATTTCATTTCATA
1 A-TACATTTCATA
1705534 CATTTCACAC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
12 2 0.06
13 9 0.26
14 24 0.69
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.43
Consensus pattern (14 bp):
ATACATTTCATATC
Found at i:1705523 original size:22 final size:22
Alignment explanation
Indices: 1705495--1705538 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
1705485 ATATCATATC
1705495 ATACATTTCATATCATACATTT
1 ATACATTTCATATCATACATTT
*
1705517 ATACATTTCATTTCATACATTT
1 ATACATTTCATATCATACATTT
1705539 CACACATCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.18, G:0.00, T:0.48
Consensus pattern (22 bp):
ATACATTTCATATCATACATTT
Found at i:1705534 original size:14 final size:14
Alignment explanation
Indices: 1705498--1705540 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
1705488 TCATATCATA
*
1705498 CATTTCATATCA-TA
1 CATTTCATA-CATTT
1705512 CATTT-ATACATTT
1 CATTTCATACATTT
1705525 CATTTCATACATTT
1 CATTTCATACATTT
1705539 CA
1 CA
1705541 CACATCAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 2 0.08
13 9 0.35
14 15 0.58
ACGTcount: A:0.33, C:0.21, G:0.00, T:0.47
Consensus pattern (14 bp):
CATTTCATACATTT
Found at i:1705720 original size:25 final size:21
Alignment explanation
Indices: 1705701--1705740 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1705691 CATATAAAAT
1705701 TATCCCGAATGACCACATATA
1 TATCCCGAATGACCACATATA
*
1705722 TGTCCCGAATGACCACATA
1 TATCCCGAATGACCACATA
1705741 GAACCCTCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.30, G:0.12, T:0.23
Consensus pattern (21 bp):
TATCCCGAATGACCACATATA
Found at i:1706264 original size:2 final size:2
Alignment explanation
Indices: 1706257--1706284 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1706247 TCACTTAAGC
1706257 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
1706285 TCTCATAACT
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:1711630 original size:2 final size:2
Alignment explanation
Indices: 1711623--1711690 Score: 136
Period size: 2 Copynumber: 34.0 Consensus size: 2
1711613 TCACATAAGC
1711623 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
1711665 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
1711691 TCTCATAACT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 66 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1714446 original size:2 final size:2
Alignment explanation
Indices: 1714439--1714472 Score: 52
Period size: 2 Copynumber: 17.0 Consensus size: 2
1714429 AGGTAAAATG
1714439 AT AT AT AT AT AT AT AT AT AT A- ACT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT
1714473 GACTATGAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 1 0.03
2 28 0.93
3 1 0.03
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1714477 original size:14 final size:13
Alignment explanation
Indices: 1714439--1714478 Score: 57
Period size: 12 Copynumber: 3.2 Consensus size: 13
1714429 AGGTAAAATG
1714439 ATATATATATA-T
1 ATATATATATACT
1714451 ATATATATA-ACT
1 ATATATATATACT
1714463 ATATATATATGACT
1 ATATATATAT-ACT
1714477 AT
1 AT
1714479 GAGTTGGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 1 0.04
12 19 0.76
14 5 0.20
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (13 bp):
ATATATATATACT
Found at i:1715052 original size:23 final size:23
Alignment explanation
Indices: 1714984--1715044 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
1714974 ACATTTTATA
*
1714984 TGGCACTTCGGTGCAATTCTATG
1 TGGCACTTCGGTGCAATTCTACG
* *
1715007 CGGCACTTCGGAGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
1715030 TGGCACTTCGGTGCA
1 TGGCACTTCGGTGCA
1715045 TTTATACGAG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.18, C:0.26, G:0.28, T:0.28
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:1717137 original size:17 final size:17
Alignment explanation
Indices: 1717115--1717149 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
1717105 TAAAACCATT
1717115 ATTAAAATTGATATTGA
1 ATTAAAATTGATATTGA
1717132 ATTAAAATTGATATTGA
1 ATTAAAATTGATATTGA
1717149 A
1 A
1717150 GGAGATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.40
Consensus pattern (17 bp):
ATTAAAATTGATATTGA
Found at i:1719945 original size:18 final size:18
Alignment explanation
Indices: 1719924--1719958 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
1719914 TGAAAATGTT
1719924 ATTATTTTAAAA-AATATA
1 ATTA-TTTAAAATAATATA
1719942 ATTATTTAAAATAATAT
1 ATTATTTAAAATAATAT
1719959 TTAATTTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTATTTAAAATAATATA
Found at i:1720945 original size:3 final size:3
Alignment explanation
Indices: 1720937--1720964 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
1720927 GAACTTAACC
1720937 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1720965 CTGAATCAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:1722471 original size:43 final size:43
Alignment explanation
Indices: 1722355--1722562 Score: 149
Period size: 43 Copynumber: 4.8 Consensus size: 43
1722345 AAAAGGTATT
**
1722355 TTGATATTTAGCGGCGTTTATC-ATTAAAACGCCGCAATAGGTG
1 TTGATATTTAGCGGCGTTT-TCTACAAAAACGCCGCAATAGGTG
* * * * *
1722398 TTGATATTTAACGGCATTTGGC-AGACAAACGCCGCAATA-GTCG
1 TTGATATTTAGCGGCGTTT-TCTACAAAAACGCCGCAATAGGT-G
* * * *
1722441 TTGATGTTTAGCGGCGTTTTCTACAAAAACGCCGCAGTAGATT
1 TTGATATTTAGCGGCGTTTTCTACAAAAACGCCGCAATAGGTG
* * * * *
1722484 TTTATTTTTATCGGCGTTTTCTTAC--AAACGCCGCAGAATATGTA
1 TTGATATTTAGCGGCGTTTTC-TACAAAAACGCCGC--AATAGGTG
* *
1722528 TTGAGATTTTGCGGCGTTTT-TATCAAAAACGCCGC
1 TTGATATTTAGCGGCGTTTTCTA-CAAAAACGCCGC
1722563 TAACTGTATG
Statistics
Matches: 128, Mismatches: 28, Indels: 16
0.74 0.16 0.09
Matches are distributed among these distances:
42 14 0.11
43 82 0.64
44 23 0.18
45 9 0.07
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (43 bp):
TTGATATTTAGCGGCGTTTTCTACAAAAACGCCGCAATAGGTG
Done.