Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009461.1 Hibiscus syriacus cultivar Beakdansim tig00113724_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: 2346588
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 12
Found at i:1061349 original size:47 final size:48
Alignment explanation
Indices: 1061261--1061354 Score: 145
Period size: 47 Copynumber: 2.0 Consensus size: 48
1061251 ACGAGATAAT
* * *
1061261 GAGAATCGCAACGCGGAAATGACTATCGCAACGATAGAATCGCAACGA
1 GAGAATCGCAACGCGGAAATGACTATCGCAACCAGACAATCGCAACGA
*
1061309 GAGAATCGCAACGC-GAAATGACTATCGCGACCAGACAATCGCAACG
1 GAGAATCGCAACGCGGAAATGACTATCGCAACCAGACAATCGCAACG
1061355 CGAAATGAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 28 0.67
48 14 0.33
ACGTcount: A:0.38, C:0.26, G:0.24, T:0.12
Consensus pattern (48 bp):
GAGAATCGCAACGCGGAAATGACTATCGCAACCAGACAATCGCAACGA
Found at i:1061367 original size:19 final size:19
Alignment explanation
Indices: 1061345--1061415 Score: 106
Period size: 19 Copynumber: 3.7 Consensus size: 19
1061335 GCGACCAGAC
1061345 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
1061364 AATCGCAACCGCGAAATAAA
1 AATCGCAA-CGCGAAATGAA
*
1061384 AATAGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
1061403 AATCGCAATGCGA
1 AATCGCAACGCGA
1061416 TTTTTGTTTC
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
19 29 0.63
20 17 0.37
ACGTcount: A:0.48, C:0.21, G:0.20, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:1061369 original size:33 final size:33
Alignment explanation
Indices: 1061298--1061373 Score: 107
Period size: 33 Copynumber: 2.3 Consensus size: 33
1061288 GCAACGATAG
* * *
1061298 AATCGCAACGAGAGAATCGCAACGCGAAATGAC
1 AATCGCAACCAGACAATCGCAACGCGAAATGAA
* *
1061331 TATCGCGACCAGACAATCGCAACGCGAAATGAA
1 AATCGCAACCAGACAATCGCAACGCGAAATGAA
1061364 AATCGCAACC
1 AATCGCAACC
1061374 GCGAAATAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.41, C:0.28, G:0.21, T:0.11
Consensus pattern (33 bp):
AATCGCAACCAGACAATCGCAACGCGAAATGAA
Found at i:1061378 original size:20 final size:19
Alignment explanation
Indices: 1061236--1061415 Score: 111
Period size: 20 Copynumber: 10.1 Consensus size: 19
1061226 GTCTTTGGTT
*
1061236 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
1061255 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
1061275 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
1061293 G--AT-AGAATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
1061307 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
1061323 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
1061341 ---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
1061356 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGC
* *
1061376 GAAATAAAAATAGCAACGC
1 GAAATGAAAATCGCAACGC
*
1061395 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
1061414 GA
1 GA
1061416 TTTTTGTTTC
Statistics
Matches: 130, Mismatches: 17, Indels: 28
0.74 0.10 0.16
Matches are distributed among these distances:
14 31 0.24
15 4 0.03
16 2 0.02
17 1 0.01
18 4 0.03
19 42 0.32
20 44 0.34
21 2 0.02
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:1061447 original size:19 final size:19
Alignment explanation
Indices: 1061411--1061455 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
1061401 AAAATCGCAA
*
1061411 TGCGATTTTTGTTTCGCGT
1 TGCGATTTTTATTTCGCGT
*
1061430 TGCGTTTTTTATTTCGCGT
1 TGCGATTTTTATTTCGCGT
*
1061449 TGTGATT
1 TGCGATT
1061456 CTCTCGTTGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.07, C:0.13, G:0.24, T:0.56
Consensus pattern (19 bp):
TGCGATTTTTATTTCGCGT
Found at i:1062094 original size:20 final size:20
Alignment explanation
Indices: 1062009--1062102 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
1061999 CGCTATGTAA
* *
1062009 ATCGCGTTGCGAAAGTCAGA
1 ATCGCGTTGCGATAGTCAGT
*
1062029 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
* * *
1062049 ATCTCGTTGCGATTTTGT-ATT
1 ATCGCGTTGCGA--TAGTCAGT
*
1062070 ATCGCATTGCGATAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
*
1062090 ATCGCATTGCGAT
1 ATCGCGTTGCGAT
1062103 TTTCCCAATT
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
19 3 0.05
20 45 0.73
21 12 0.19
22 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTCAGT
Found at i:1062121 original size:41 final size:41
Alignment explanation
Indices: 1062029--1062123 Score: 111
Period size: 41 Copynumber: 2.3 Consensus size: 41
1062019 GAAAGTCAGA
* * * ** *
1062029 ATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTTCCAAT
*
1062070 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 ATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTT-CCAAT
1062112 -TCGCGTTGCGAT
1 ATCGCGTTGCGAT
1062124 TTACTTATTC
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
41 43 0.96
42 2 0.04
ACGTcount: A:0.20, C:0.21, G:0.23, T:0.36
Consensus pattern (41 bp):
ATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTTCCAAT
Found at i:1062213 original size:21 final size:21
Alignment explanation
Indices: 1062173--1062213 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1062163 ACTGTATACC
**
1062173 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
1062194 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
1062214 GTGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:1064149 original size:42 final size:42
Alignment explanation
Indices: 1064098--1064217 Score: 204
Period size: 42 Copynumber: 2.9 Consensus size: 42
1064088 TTTCCCCGAA
* *
1064098 TTCCCGTGTTTGTTTCACGTAATTCGTTTTTCGGAAAATATT
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACATT
* *
1064140 TTCTCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACATT
1064182 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAA
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAA
1064218 TGTAATTCAT
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 73 1.00
ACGTcount: A:0.17, C:0.19, G:0.18, T:0.46
Consensus pattern (42 bp):
TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACATT
Found at i:1064444 original size:23 final size:23
Alignment explanation
Indices: 1064389--1064450 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
1064379 CATTTTCATC
*
1064389 AAAATAATAATTATTAAAATATTT
1 AAAATAATATTTATT-AAATATTT
1064413 AAAAT-ATATTTATT-AATATTAT
1 AAAATAATATTTATTAAATATT-T
*
1064435 AATATAATATTATATT
1 AAAATAATATT-TATT
1064451 TTTAATATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
21 6 0.18
22 5 0.15
23 13 0.39
24 9 0.27
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
AAAATAATATTTATTAAATATTT
Found at i:1064493 original size:23 final size:22
Alignment explanation
Indices: 1064455--1064504 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 22
1064445 TATATTTTTA
1064455 ATATTATATAAAATAATCA-ATT
1 ATATTATATAAAATAAT-ATATT
*
1064477 ATATTATAATAATATAATATATT
1 ATATTAT-ATAAAATAATATATT
1064500 ATATT
1 ATATT
1064505 TTATTTTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 8 0.32
23 17 0.68
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (22 bp):
ATATTATATAAAATAATATATT
Found at i:1064509 original size:28 final size:27
Alignment explanation
Indices: 1064433--1064520 Score: 76
Period size: 28 Copynumber: 3.3 Consensus size: 27
1064423 TATTAATATT
*
1064433 ATAATAT-AATATTATATTTT-TAAT-
1 ATAATATAAATATTATATTTTATTATA
* * *
1064457 ATTATATAAA-ATAATCAATTATATTATA
1 ATAATATAAATATTAT--ATTTTATTATA
*
1064485 ATAATATAATATATTATATTTTATTTTA
1 ATAATATAA-ATATTATATTTTATTATA
1064513 ATAATATA
1 ATAATATA
1064521 TAATTTTTTA
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
24 10 0.20
25 2 0.04
26 4 0.08
27 3 0.06
28 25 0.51
29 1 0.02
30 4 0.08
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (27 bp):
ATAATATAAATATTATATTTTATTATA
Found at i:1064524 original size:30 final size:30
Alignment explanation
Indices: 1064416--1064574 Score: 106
Period size: 30 Copynumber: 5.5 Consensus size: 30
1064406 AATATTTAAA
*
1064416 ATATATTTATTAATATTATAATATA--ATATT
1 ATAT-TTTAATAATA-TATAATATATTATATT
* * *
1064446 ATATTTTTAATATTATATAAAATAATCA-ATT
1 ATA-TTTTAATAATATATAATAT-ATTATATT
*
1064477 ATATTATAAT-A-ATATAATATATTATATT
1 ATATTTTAATAATATATAATATATTATATT
* * *
1064505 TTATTTTAATAATATATAATTTTTTATA-T
1 ATATTTTAATAATATATAATATATTATATT
*
1064534 ATA-TTTAAT-A-AT-GAATATATTAT-TAT
1 ATATTTTAATAATATATAATATATTATAT-T
*
1064560 ATATTTCAATAATAT
1 ATATTTTAATAATAT
1064575 TTTAGTAAAG
Statistics
Matches: 101, Mismatches: 16, Indels: 25
0.71 0.11 0.18
Matches are distributed among these distances:
25 8 0.08
26 6 0.06
27 9 0.09
28 26 0.26
29 13 0.13
30 31 0.31
31 7 0.07
32 1 0.01
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (30 bp):
ATATTTTAATAATATATAATATATTATATT
Found at i:1064540 original size:28 final size:29
Alignment explanation
Indices: 1064482--1064573 Score: 93
Period size: 28 Copynumber: 3.2 Consensus size: 29
1064472 CAATTATATT
* *
1064482 ATAATAATATAATATATTATATTTTATTTTA
1 ATAATAATATAATTTATTATA-TATA-TTTA
*
1064513 ATAAT-ATATAATTTTTTATATATATTTA
1 ATAATAATATAATTTATTATATATATTTA
*
1064541 ATAATGAATAT-A-TTATTATATAT-TTCA
1 ATAAT-AATATAATTTATTATATATATTTA
1064568 ATAATA
1 ATAATA
1064574 TTTTAGTAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
26 1 0.02
27 8 0.15
28 19 0.35
29 4 0.07
30 17 0.31
31 5 0.09
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (29 bp):
ATAATAATATAATTTATTATATATATTTA
Found at i:1064759 original size:20 final size:20
Alignment explanation
Indices: 1064734--1064803 Score: 113
Period size: 20 Copynumber: 3.5 Consensus size: 20
1064724 TTTTCAGATG
1064734 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
* *
1064754 TTTTCCAAAAATATAATTCA
1 TTTTCCAGAAATGTAATTCA
*
1064774 TTTTACAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
1064794 TTTTCCAGAA
1 TTTTCCAGAA
1064804 TTCAAATTCC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.39, C:0.14, G:0.07, T:0.40
Consensus pattern (20 bp):
TTTTCCAGAAATGTAATTCA
Found at i:1064822 original size:15 final size:15
Alignment explanation
Indices: 1064786--1064853 Score: 93
Period size: 15 Copynumber: 4.6 Consensus size: 15
1064776 TTACAGAAAT
**
1064786 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
1064801 G-AATTCAAATTCCA
1 GTAATTCAAATTCCA
**
1064815 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
1064830 GTAATTCAAATTCCA
1 GTAATTCAAATTCCA
1064845 GTAATTCAA
1 GTAATTCAA
1064854 TTATACACTG
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
14 12 0.26
15 34 0.74
ACGTcount: A:0.35, C:0.19, G:0.07, T:0.38
Consensus pattern (15 bp):
GTAATTCAAATTCCA
Found at i:1064828 original size:29 final size:30
Alignment explanation
Indices: 1064786--1064852 Score: 127
Period size: 30 Copynumber: 2.3 Consensus size: 30
1064776 TTACAGAAAT
1064786 GTAATTCATTTTCCAG-AATTCAAATTCCA
1 GTAATTCATTTTCCAGTAATTCAAATTCCA
1064815 GTAATTCATTTTCCAGTAATTCAAATTCCA
1 GTAATTCATTTTCCAGTAATTCAAATTCCA
1064845 GTAATTCA
1 GTAATTCA
1064853 ATTATACACT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 16 0.43
30 21 0.57
ACGTcount: A:0.34, C:0.19, G:0.07, T:0.39
Consensus pattern (30 bp):
GTAATTCATTTTCCAGTAATTCAAATTCCA
Found at i:1067753 original size:46 final size:46
Alignment explanation
Indices: 1067653--1067744 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
1067643 ACAGGAAAGT
*
1067653 GCATTCAAGTGAATGCTATAGACGATTGCACCATTGGAGAAGATAA
1 GCATTCAAGTAAATGCTATAGACGATTGCACCATTGGAGAAGATAA
1067699 GCATTCAAGTAAATGCTATAGACGATTGCACCATTGGAGAAGATAA
1 GCATTCAAGTAAATGCTATAGACGATTGCACCATTGGAGAAGATAA
1067745 TGGTTCAAGA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.24
Consensus pattern (46 bp):
GCATTCAAGTAAATGCTATAGACGATTGCACCATTGGAGAAGATAA
Found at i:1068128 original size:38 final size:38
Alignment explanation
Indices: 1068075--1068204 Score: 120
Period size: 38 Copynumber: 3.4 Consensus size: 38
1068065 TATATTATCA
* *
1068075 TTTTTGTTTTTATTTAATTAAGATACGATCACTTTTGG
1 TTTTTATTTTAATTTAATTAAGATACGATCACTTTTGG
* ** ** * **
1068113 TTTTTATTTTAATTTATTTTAATTTTAATAT-A-TTATCA
1 TTTTTATTTTAATTTA-ATTAA-GATACGATCACTTTTGG
* *
1068151 TTTTTGTTTTTATTTAATTAAGATACGATCACTTTTGG
1 TTTTTATTTTAATTTAATTAAGATACGATCACTTTTGG
1068189 TTTTTATTTTAATTTA
1 TTTTTATTTTAATTTA
1068205 TTTTAATTTA
Statistics
Matches: 66, Mismatches: 22, Indels: 8
0.69 0.23 0.08
Matches are distributed among these distances:
36 4 0.06
37 5 0.08
38 48 0.73
39 5 0.08
40 4 0.06
ACGTcount: A:0.26, C:0.05, G:0.08, T:0.61
Consensus pattern (38 bp):
TTTTTATTTTAATTTAATTAAGATACGATCACTTTTGG
Found at i:1068137 original size:16 final size:16
Alignment explanation
Indices: 1068113--1068146 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1068103 TCACTTTTGG
* *
1068113 TTTTTATTTTAATTTA
1 TTTTAATTTTAATATA
1068129 TTTTAATTTTAATATA
1 TTTTAATTTTAATATA
1068145 TT
1 TT
1068147 ATCATTTTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTAATTTTAATATA
Found at i:1068150 original size:76 final size:76
Alignment explanation
Indices: 1068064--1068213 Score: 300
Period size: 76 Copynumber: 2.0 Consensus size: 76
1068054 AAAAAATATT
1068064 ATATATTATCATTTTTGTTTTTATTTAATTAAGATACGATCACTTTTGGTTTTTATTTTAATTTA
1 ATATATTATCATTTTTGTTTTTATTTAATTAAGATACGATCACTTTTGGTTTTTATTTTAATTTA
1068129 TTTTAATTTTA
66 TTTTAATTTTA
1068140 ATATATTATCATTTTTGTTTTTATTTAATTAAGATACGATCACTTTTGGTTTTTATTTTAATTTA
1 ATATATTATCATTTTTGTTTTTATTTAATTAAGATACGATCACTTTTGGTTTTTATTTTAATTTA
1068205 TTTTAATTT
66 TTTTAATTT
1068214 ATTTTAATTT
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 74 1.00
ACGTcount: A:0.27, C:0.05, G:0.07, T:0.61
Consensus pattern (76 bp):
ATATATTATCATTTTTGTTTTTATTTAATTAAGATACGATCACTTTTGGTTTTTATTTTAATTTA
TTTTAATTTTA
Found at i:1068206 original size:10 final size:10
Alignment explanation
Indices: 1068191--1068223 Score: 66
Period size: 10 Copynumber: 3.3 Consensus size: 10
1068181 ACTTTTGGTT
1068191 TTTATTTTAA
1 TTTATTTTAA
1068201 TTTATTTTAA
1 TTTATTTTAA
1068211 TTTATTTTAA
1 TTTATTTTAA
1068221 TTT
1 TTT
1068224 GATTAGGTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (10 bp):
TTTATTTTAA
Found at i:1068393 original size:16 final size:16
Alignment explanation
Indices: 1068368--1068408 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
1068358 ATTCCATGTA
*
1068368 TCACTGGTGCCACGTG
1 TCACTAGTGCCACGTG
*
1068384 TCACTAGTGCCATGTG
1 TCACTAGTGCCACGTG
1068400 TCACTAGTG
1 TCACTAGTG
1068409 TTACGTATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.17, C:0.27, G:0.27, T:0.29
Consensus pattern (16 bp):
TCACTAGTGCCACGTG
Found at i:1068591 original size:28 final size:27
Alignment explanation
Indices: 1068505--1068595 Score: 83
Period size: 28 Copynumber: 3.3 Consensus size: 27
1068495 AAATCGAATG
* *
1068505 GTGACACGTGGTACGATACGTGATATCA
1 GTGACACATGGCACGATACGTGATA-CA
* * * * *
1068533 GTGATACATGACACAATATGTGGTACCA
1 GTGACACATGGCACGATACGTGATA-CA
*
1068561 GTGACACATGGCACGATACATGATACAA
1 GTGACACATGGCACGATACGTGATAC-A
1068589 GTGACAC
1 GTGACAC
1068596 GTGACATCAT
Statistics
Matches: 48, Mismatches: 14, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
27 1 0.02
28 47 0.98
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.22
Consensus pattern (27 bp):
GTGACACATGGCACGATACGTGATACA
Found at i:1072888 original size:2 final size:2
Alignment explanation
Indices: 1072881--1072905 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1072871 GTTACTTGAC
1072881 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1072906 ATTAAAGTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1073256 original size:24 final size:24
Alignment explanation
Indices: 1073228--1073277 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
1073218 TTCATTCTCA
* **
1073228 TATATAAGACCATTTTAGTTTCAT
1 TATATAAAACCATTTTAACTTCAT
1073252 TATATAAAACCATTTTAACTTCAT
1 TATATAAAACCATTTTAACTTCAT
1073276 TA
1 TA
1073278 GGTTCATTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.14, G:0.04, T:0.44
Consensus pattern (24 bp):
TATATAAAACCATTTTAACTTCAT
Found at i:1080311 original size:16 final size:16
Alignment explanation
Indices: 1080290--1080340 Score: 70
Period size: 16 Copynumber: 3.3 Consensus size: 16
1080280 GTCTCCAACG
1080290 TTTATGTTCGTGTTCA
1 TTTATGTTCGTGTTCA
*
1080306 TTTATGTTCGTGTTCG
1 TTTATGTTCGTGTTCA
*
1080322 TTTATATTCGT-TT-A
1 TTTATGTTCGTGTTCA
1080336 TTTAT
1 TTTAT
1080341 TAAATGAACG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
14 5 0.16
15 2 0.06
16 25 0.78
ACGTcount: A:0.14, C:0.10, G:0.16, T:0.61
Consensus pattern (16 bp):
TTTATGTTCGTGTTCA
Found at i:1082343 original size:28 final size:27
Alignment explanation
Indices: 1082277--1082352 Score: 73
Period size: 28 Copynumber: 2.7 Consensus size: 27
1082267 ATGGTTCAAG
* *
1082277 TTATGAGATACTTTCGAGTGCCAATTA
1 TTATGAGACACTTTCAAGTGCCAATTA
* *
1082304 TTGGTGAAACACTTTCAAGTG-CAATTGA
1 TT-ATGAGACACTTTCAAGTGCCAATT-A
*
1082332 TATATGAGACACTTACAAGTG
1 T-TATGAGACACTTTCAAGTG
1082353 TGTATTACGC
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
27 7 0.18
28 31 0.79
29 1 0.03
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.33
Consensus pattern (27 bp):
TTATGAGACACTTTCAAGTGCCAATTA
Found at i:1082955 original size:15 final size:15
Alignment explanation
Indices: 1082923--1082975 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
1082913 TTAGATCGGA
* * *
1082923 ATTCGGATGTATGCT
1 ATTCGGATATGTGTT
1082938 ATTC-GAGTATGTGTT
1 ATTCGGA-TATGTGTT
1082953 ATTCGGATATGTGTT
1 ATTCGGATATGTGTT
*
1082968 ACTCGGAT
1 ATTCGGAT
1082976 TAGATCGAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
14 2 0.06
15 28 0.88
16 2 0.06
ACGTcount: A:0.21, C:0.11, G:0.26, T:0.42
Consensus pattern (15 bp):
ATTCGGATATGTGTT
Found at i:1083746 original size:135 final size:137
Alignment explanation
Indices: 1083500--1083762 Score: 458
Period size: 135 Copynumber: 1.9 Consensus size: 137
1083490 GTAATTGGGA
* *
1083500 TGTCCCTTGTTCCCATATGTAATGGGGTAAGGGGGAGGTAAGATAGTAGGCTGCCCCCAATACTA
1 TGTCCCTTGTTCCCATATGTAATGGGGTAAGAGGGAGGTAAGATAGTAGGCTGCCCCCAACACTA
*
1083565 GGTTGAGAGCAGCTTCCGTAGGAGACCTCCGAATTATGAAATGCCCTCCATAGGACTCGATCCTT
66 GGTTGAGAGCAGCTTCCGTAGGAGACCTCCGAATTATGAAAGGCCCTCCATAGGACTCGATCCTT
1083630 AAATGGT
131 AAATGGT
*
1083637 TGTCCCTTGTTCCCATATGTAATGGGGTAA-AGGG-GGTAAGATAGTAGGCTGCCCTCAACACTA
1 TGTCCCTTGTTCCCATATGTAATGGGGTAAGAGGGAGGTAAGATAGTAGGCTGCCCCCAACACTA
* *
1083700 GGTTGAGAGCAGCTTCCGTAGGAGACCTTCGAATTATGAAAGGCCCTCCATGGGACTCGATCC
66 GGTTGAGAGCAGCTTCCGTAGGAGACCTCCGAATTATGAAAGGCCCTCCATAGGACTCGATCC
1083763 CACGACCTCA
Statistics
Matches: 120, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
135 87 0.73
136 3 0.03
137 30 0.25
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (137 bp):
TGTCCCTTGTTCCCATATGTAATGGGGTAAGAGGGAGGTAAGATAGTAGGCTGCCCCCAACACTA
GGTTGAGAGCAGCTTCCGTAGGAGACCTCCGAATTATGAAAGGCCCTCCATAGGACTCGATCCTT
AAATGGT
Found at i:1084876 original size:15 final size:15
Alignment explanation
Indices: 1084856--1084915 Score: 66
Period size: 15 Copynumber: 3.8 Consensus size: 15
1084846 AAAATACAAC
1084856 ATTCCCAGTAATCTT
1 ATTCCCAGTAATCTT
* *
1084871 ATTCCCTGTAATCCT
1 ATTCCCAGTAATCTT
1084886 ATTCCCTAGTAATCTTTT
1 ATTCCC-AGTAATC--TT
*
1084904 ATTCCCACTAAT
1 ATTCCCAGTAAT
1084916 AATCTTACAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
15 19 0.51
16 6 0.16
17 5 0.14
18 7 0.19
ACGTcount: A:0.25, C:0.28, G:0.05, T:0.42
Consensus pattern (15 bp):
ATTCCCAGTAATCTT
Found at i:1086481 original size:18 final size:18
Alignment explanation
Indices: 1086460--1086507 Score: 96
Period size: 18 Copynumber: 2.7 Consensus size: 18
1086450 GTTGATCAGT
1086460 CCGACCCGACCCGTTGAC
1 CCGACCCGACCCGTTGAC
1086478 CCGACCCGACCCGTTGAC
1 CCGACCCGACCCGTTGAC
1086496 CCGACCCGACCC
1 CCGACCCGACCC
1086508 AATGATATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.17, C:0.54, G:0.21, T:0.08
Consensus pattern (18 bp):
CCGACCCGACCCGTTGAC
Found at i:1086574 original size:29 final size:29
Alignment explanation
Indices: 1086514--1086692 Score: 202
Period size: 29 Copynumber: 6.2 Consensus size: 29
1086504 ACCCAATGAT
1086514 ATTTTGGGAATTATTTTGAAAAA-GTGAC
1 ATTTTGGGAATTATTTTGAAAAATGTGAC
1086542 ATTTTGGGAATTATTTTGAAAAATGTGAC
1 ATTTTGGGAATTATTTTGAAAAATGTGAC
*
1086571 ATTTTGGGAATTATTTTG-AAAATGTAAC
1 ATTTTGGGAATTATTTTGAAAAATGTGAC
* * **
1086599 ATTTTGGAAATTTTTTTTTAAAATAGTGAC
1 ATTTTGGGAATTATTTTGAAAAAT-GTGAC
* * * *
1086629 ATTCTAGTAATTATTTT-TAAAATGATGAC
1 ATTTTGGGAATTATTTTGAAAAATG-TGAC
* * *
1086658 ATTTTGGGAATTATTTTTAATAAAGGTGAT
1 ATTTTGGGAATTATTTTGAA-AAATGTGAC
1086688 ATTTT
1 ATTTT
1086693 TATAATTTTC
Statistics
Matches: 130, Mismatches: 15, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
28 48 0.37
29 52 0.40
30 26 0.20
31 4 0.03
ACGTcount: A:0.35, C:0.03, G:0.17, T:0.45
Consensus pattern (29 bp):
ATTTTGGGAATTATTTTGAAAAATGTGAC
Found at i:1089921 original size:20 final size:23
Alignment explanation
Indices: 1089873--1089924 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
1089863 AATAAATAAT
*
1089873 AATAAAAAAAAGTAAAAGGGAGA
1 AATAAATAAAAGTAAAAGGGAGA
*
1089896 AATAAATAAAA-TAAAAGTG-G-
1 AATAAATAAAAGTAAAAGGGAGA
1089916 AATAAATAA
1 AATAAATAA
1089925 TTAATGAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 9 0.33
21 1 0.04
22 7 0.26
23 10 0.37
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (23 bp):
AATAAATAAAAGTAAAAGGGAGA
Found at i:1091722 original size:20 final size:20
Alignment explanation
Indices: 1091699--1091740 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
1091689 GAATCCTTCG
1091699 TCGTGAAATTGAAATCGAAC
1 TCGTGAAATTGAAATCGAAC
* *
1091719 TCGTGAAGTTGAAGTCGAAC
1 TCGTGAAATTGAAATCGAAC
1091739 TC
1 TC
1091741 AGAGTTCTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (20 bp):
TCGTGAAATTGAAATCGAAC
Found at i:1091983 original size:105 final size:105
Alignment explanation
Indices: 1091821--1092535 Score: 1376
Period size: 105 Copynumber: 6.8 Consensus size: 105
1091811 ATTGTTTATC
* * *
1091821 GACAACCAGCGGTCCCTTCGTCATGAAGTTGAACCTGCGTTGTCTGGAGTCCAATATCCTTCGTT
1 GACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCT
1091886 GTGAAGTTGAAATTGGCTCTAAATTTGAGAAATGTTTGGT
66 GTGAAGTTGAAATTGGCTCTAAATTTGAGAAATGTTTGGT
1091926 GACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCT
1 GACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCT
1091991 GTGAAGTTGAAATTGGCTCTAAATTTGAGAAATGTTTGGT
66 GTGAAGTTGAAATTGGCTCTAAATTTGAGAAATGTTTGGT
1092031 GACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCT
1 GACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCT
1092096 GTGAAGTTGAAATTGGCTCTAAATTTGAGAAATGTTTGGT
66 GTGAAGTTGAAATTGGCTCTAAATTTGAGAAATGTTTGGT
1092136 GACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCT
1 GACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCT
1092201 GTGAAGTTGAAATTGGCTCTAAATTTGAGAAATGTTTGGT
66 GTGAAGTTGAAATTGGCTCTAAATTTGAGAAATGTTTGGT
1092241 GACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCT
1 GACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCT
*
1092306 GTGAAGTTGAAATTGGCTCTAAATTTGAGAAATGTTTAGT
66 GTGAAGTTGAAATTGGCTCTAAATTTGAGAAATGTTTGGT
1092346 GACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCT
1 GACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCT
*
1092411 GTGAAGTTGAAATTGGCTTTAAATTTGAGAAATGTTTGGT
66 GTGAAGTTGAAATTGGCTCTAAATTTGAGAAATGTTTGGT
*
1092451 GACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTT
1 GACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCT
1092516 GTGAAGTTGAAATTGGCTCT
66 GTGAAGTTGAAATTGGCTCT
1092536 GGGTAAAACC
Statistics
Matches: 602, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
105 602 1.00
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.32
Consensus pattern (105 bp):
GACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCT
GTGAAGTTGAAATTGGCTCTAAATTTGAGAAATGTTTGGT
Found at i:1093339 original size:1 final size:1
Alignment explanation
Indices: 1093333--1093361 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
1093323 ACCCTAAACG
1093333 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1093362 CAACTTAGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:1104139 original size:17 final size:17
Alignment explanation
Indices: 1104119--1104169 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 17
1104109 TACATACACG
1104119 AATATAATAATAAAAAT
1 AATATAATAATAAAAAT
** *
1104136 AATATAATAGCATAAAT
1 AATATAATAATAAAAAT
*
1104153 AA-ATAATAATAATAAT
1 AATATAATAATAAAAAT
1104169 A
1 A
1104170 GTAAAAAGTA
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
16 11 0.41
17 16 0.59
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (17 bp):
AATATAATAATAAAAAT
Found at i:1104653 original size:3 final size:3
Alignment explanation
Indices: 1104645--1104687 Score: 50
Period size: 3 Copynumber: 13.3 Consensus size: 3
1104635 ATATATACGT
*
1104645 ATA ATA ATA ATA ATA ACA ATA ATA ATA TATA TATA TATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA -ATA -ATA ATA A
1104688 AACGTATAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 26 0.70
4 11 0.30
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:1104684 original size:18 final size:17
Alignment explanation
Indices: 1104644--1104687 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 17
1104634 TATATATACG
1104644 TATAATAATAATA-ATA
1 TATAATAATAATATATA
*
1104660 -ACAATAATAATATATA
1 TATAATAATAATATATA
1104676 TATATATAATAA
1 TATA-ATAATAA
1104688 AACGTATAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 11 0.48
16 3 0.13
17 2 0.09
18 7 0.30
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (17 bp):
TATAATAATAATATATA
Found at i:1104696 original size:48 final size:51
Alignment explanation
Indices: 1104619--1104729 Score: 124
Period size: 46 Copynumber: 2.2 Consensus size: 51
1104609 TATAAAAAGA
* *
1104619 AATAAAATATATACATATATATACGTATAA-T-A-ATAATAATA-AC-AAT
1 AATAATATATATACATATATAAACGTATAAGTGACATAATAATATACTAAT
* *
1104665 AATAATATATATATATATAATAAAACGTATAAGTGACATAATACTATACTAAT
1 AATAATATATATACATAT-AT-AAACGTATAAGTGACATAATAATATACTAAT
1104718 AATACATATATA
1 AATA-ATATATA
1104730 CGAGTGTAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
46 16 0.30
47 2 0.04
48 9 0.17
49 1 0.02
50 1 0.02
51 8 0.15
52 2 0.04
53 7 0.13
54 7 0.13
ACGTcount: A:0.56, C:0.07, G:0.04, T:0.33
Consensus pattern (51 bp):
AATAATATATATACATATATAAACGTATAAGTGACATAATAATATACTAAT
Found at i:1105792 original size:18 final size:16
Alignment explanation
Indices: 1105761--1105801 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
1105751 AAAAAAAATG
1105761 TAAATATAATTTATAA
1 TAAATATAATTTATAA
1105777 TAAATATATATATTAT-A
1 TAAATATA-AT-TTATAA
1105794 T-AATATAA
1 TAAATATAA
1105802 GGATGAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 1 0.04
16 14 0.61
17 4 0.17
18 4 0.17
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TAAATATAATTTATAA
Found at i:1109203 original size:10 final size:10
Alignment explanation
Indices: 1109185--1109214 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
1109175 AATTTAGCTT
*
1109185 ATTCGTGTTC
1 ATTCATGTTC
1109195 ATTCATGTTC
1 ATTCATGTTC
1109205 ATTCATGTTC
1 ATTCATGTTC
1109215 GTTCGTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.17, C:0.20, G:0.13, T:0.50
Consensus pattern (10 bp):
ATTCATGTTC
Found at i:1109281 original size:25 final size:24
Alignment explanation
Indices: 1109229--1109281 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 24
1109219 GTTTAAATGT
* * *
1109229 TAAACAAACATAAATGAACGAACG
1 TAAACAAACAAAAACGAACGAACA
*
1109253 TAAACAAACAAAAAACGGACGAACA
1 TAAACAAAC-AAAAACGAACGAACA
1109278 TAAA
1 TAAA
1109282 ATTAATTGGG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 9 0.38
25 15 0.62
ACGTcount: A:0.62, C:0.17, G:0.11, T:0.09
Consensus pattern (24 bp):
TAAACAAACAAAAACGAACGAACA
Found at i:1109486 original size:14 final size:14
Alignment explanation
Indices: 1109466--1109521 Score: 76
Period size: 14 Copynumber: 4.0 Consensus size: 14
1109456 CATAAACGAT
1109466 CATAAACAAATGAA
1 CATAAACAAATGAA
*
1109480 TATAAACAAATGAA
1 CATAAACAAATGAA
* *
1109494 CATAAATAAAAGAA
1 CATAAACAAATGAA
*
1109508 CATAAACGAATGAA
1 CATAAACAAATGAA
1109522 TTATCAAACA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 35 1.00
ACGTcount: A:0.64, C:0.11, G:0.09, T:0.16
Consensus pattern (14 bp):
CATAAACAAATGAA
Found at i:1116704 original size:40 final size:40
Alignment explanation
Indices: 1116658--1116869 Score: 186
Period size: 40 Copynumber: 5.2 Consensus size: 40
1116648 GAAATCCAAT
1116658 TTCGCAACAC-AATTTCCGAATTT-GCAACTCGAATTTATAA
1 TTCGCAACACGAATTT-C-AATTTCGCAACTCGAATTTATAA
** * *
1116698 TTCGCAACAC-ATAAGTCGAA-TTCGCAACTCGAATTTGACATT
1 TTCGCAACACGA-ATTTC-AATTTCGCAACTCGAATTT-ATA-A
* ** *
1116740 TTCTCAACACGAATTTCTTTTTCGCAACTCG-ATTTTTAAA
1 TTCGCAACACGAATTTCAATTTCGCAACTCGAATTTAT-AA
* **
1116780 TTCGCAACACGAGTTTCTCTTTCGCAACTCGAATTTATAA
1 TTCGCAACACGAATTTCAATTTCGCAACTCGAATTTATAA
*
1116820 TTCGCAACACGAATTTCATTTTCGCAACTC-AATTT-TCGAA
1 TTCGCAACACGAATTTCAATTTCGCAACTCGAATTTAT--AA
1116860 TTCGCAACAC
1 TTCGCAACAC
1116870 AAATATTTAG
Statistics
Matches: 143, Mismatches: 19, Indels: 20
0.79 0.10 0.11
Matches are distributed among these distances:
38 1 0.01
39 7 0.05
40 97 0.68
41 14 0.10
42 23 0.16
43 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.34
Consensus pattern (40 bp):
TTCGCAACACGAATTTCAATTTCGCAACTCGAATTTATAA
Found at i:1116855 original size:80 final size:82
Alignment explanation
Indices: 1116718--1116869 Score: 227
Period size: 80 Copynumber: 1.9 Consensus size: 82
1116708 ATAAGTCGAA
* * * * *
1116718 TTCGCAACTCGAATTTGACATTTTCTCAACACGAATTTCTTTTTCGCAACTCGATTTTTAAATTC
1 TTCGCAACTCGAATTTGACATATTCGCAACACGAATTTCATTTTCGCAACTCAATTTTCAAATTC
1116783 GCAACACGAGTTTCTCT
66 GCAACACGAGTTTCTCT
* *
1116800 TTCGCAACTCGAATTT-ATA-ATTCGCAACACGAATTTCATTTTCGCAACTCAATTTTCGAATTC
1 TTCGCAACTCGAATTTGACATATTCGCAACACGAATTTCATTTTCGCAACTCAATTTTCAAATTC
1116863 GCAACAC
66 GCAACAC
1116870 AAATATTTAG
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
80 45 0.71
81 2 0.03
82 16 0.25
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.36
Consensus pattern (82 bp):
TTCGCAACTCGAATTTGACATATTCGCAACACGAATTTCATTTTCGCAACTCAATTTTCAAATTC
GCAACACGAGTTTCTCT
Found at i:1116856 original size:20 final size:20
Alignment explanation
Indices: 1116718--1116854 Score: 118
Period size: 20 Copynumber: 6.8 Consensus size: 20
1116708 ATAAGTCGAA
1116718 TTCGCAACTCGAATTTGACATT
1 TTCGCAACTCGAATTT--CATT
* * *
1116740 TTCTCAACACGAATTTCTTT
1 TTCGCAACTCGAATTTCATT
* * **
1116760 TTCGCAACTCGATTTTTAAA
1 TTCGCAACTCGAATTTCATT
* *
1116780 TTCGCAACACGAGTTTC-TCT
1 TTCGCAACTCGAATTTCAT-T
*
1116800 TTCGCAACTCGAATTT-ATAA
1 TTCGCAACTCGAATTTCAT-T
*
1116820 TTCGCAACACGAATTTCATT
1 TTCGCAACTCGAATTTCATT
1116840 TTCGCAACTC-AATTT
1 TTCGCAACTCGAATTT
1116855 TCGAATTCGC
Statistics
Matches: 90, Mismatches: 22, Indels: 9
0.74 0.18 0.07
Matches are distributed among these distances:
19 5 0.06
20 69 0.77
21 2 0.02
22 14 0.16
ACGTcount: A:0.28, C:0.24, G:0.10, T:0.38
Consensus pattern (20 bp):
TTCGCAACTCGAATTTCATT
Found at i:1116913 original size:25 final size:26
Alignment explanation
Indices: 1116885--1116937 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
1116875 TTTAGGGTAT
1116885 ATAAACT-ACCCCTAAATCGCAACTC
1 ATAAACTAACCCCTAAATCGCAACTC
* *
1116910 ATAATCTAAACCCCTAAATTGCAACTC
1 ATAAACT-AACCCCTAAATCGCAACTC
1116937 A
1 A
1116938 ATCCATCTCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 6 0.25
27 18 0.75
ACGTcount: A:0.42, C:0.32, G:0.04, T:0.23
Consensus pattern (26 bp):
ATAAACTAACCCCTAAATCGCAACTC
Found at i:1118840 original size:2 final size:2
Alignment explanation
Indices: 1118833--1118857 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1118823 TATTGGGCGT
1118833 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
1118858 TAAACAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:1119142 original size:42 final size:42
Alignment explanation
Indices: 1119076--1119269 Score: 297
Period size: 42 Copynumber: 4.7 Consensus size: 42
1119066 TCACCTCATC
1119076 CTACACCTCGACACCGAGATCCATCACCTCATCGAGCCGATT
1 CTACACCTCGACACCGAGATCCATCACCTCATCGAGCCGATT
*
1119118 CT-CTACTTCGACACCGAGATCCATCACCTCATCGAGCCGATT
1 CTAC-ACCTCGACACCGAGATCCATCACCTCATCGAGCCGATT
* ** *
1119160 CTCCAATTCGACACCGAGATCCATCACCTTATCGAGCCGATT
1 CTACACCTCGACACCGAGATCCATCACCTCATCGAGCCGATT
*
1119202 CTACACCTCGACACCGAGATCCATCACCTC-T--AGCCGACT
1 CTACACCTCGACACCGAGATCCATCACCTCATCGAGCCGATT
1119241 CTACACCTCGACACCGAGATCCATCACCT
1 CTACACCTCGACACCGAGATCCATCACCT
1119270 ATTCCATCAC
Statistics
Matches: 142, Mismatches: 8, Indels: 7
0.90 0.05 0.04
Matches are distributed among these distances:
39 36 0.25
41 2 0.01
42 103 0.73
43 1 0.01
ACGTcount: A:0.26, C:0.40, G:0.13, T:0.21
Consensus pattern (42 bp):
CTACACCTCGACACCGAGATCCATCACCTCATCGAGCCGATT
Found at i:1119152 original size:24 final size:24
Alignment explanation
Indices: 1119083--1119152 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 24
1119073 ATCCTACACC
1119083 TCGACACCGAGATCCATCACCTCA
1 TCGACACCGAGATCCATCACCTCA
* *
1119107 TCGA-GCC--GATTC-TCTA-CT--
1 TCGACACCGAGATCCATC-ACCTCA
1119125 TCGACACCGAGATCCATCACCTCA
1 TCGACACCGAGATCCATCACCTCA
1119149 TCGA
1 TCGA
1119153 GCCGATTCTC
Statistics
Matches: 34, Mismatches: 4, Indels: 16
0.63 0.07 0.30
Matches are distributed among these distances:
18 4 0.12
19 2 0.06
20 4 0.12
21 10 0.29
22 4 0.12
23 2 0.06
24 8 0.24
ACGTcount: A:0.26, C:0.39, G:0.14, T:0.21
Consensus pattern (24 bp):
TCGACACCGAGATCCATCACCTCA
Found at i:1119212 original size:18 final size:18
Alignment explanation
Indices: 1119191--1119251 Score: 50
Period size: 18 Copynumber: 3.2 Consensus size: 18
1119181 CATCACCTTA
*
1119191 TCGAGCCGATTCTACACC
1 TCGAGCCGAATCTACACC
* *
1119209 TCGACACCGAGATCCATCACC
1 TCGA-GCCGA-ATCTA-CACC
* *
1119230 TCTAGCCGACTCTACACC
1 TCGAGCCGAATCTACACC
1119248 TCGA
1 TCGA
1119252 CACCGAGATC
Statistics
Matches: 32, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
18 11 0.34
19 7 0.22
20 7 0.22
21 7 0.22
ACGTcount: A:0.25, C:0.41, G:0.15, T:0.20
Consensus pattern (18 bp):
TCGAGCCGAATCTACACC
Found at i:1119224 original size:84 final size:81
Alignment explanation
Indices: 1119029--1119269 Score: 298
Period size: 84 Copynumber: 3.0 Consensus size: 81
1119019 CCCCACTTTT
* * * * *
1119029 TCATCGAGTCGATTCTCCACTTCGACACCGAGATCCATCACCTC-A----TC-CTACACCTCGAC
1 TCATCGAGCCGATTCTCTACCTCGACACCGAGATCCATCACCTCTAGCCGACTCTACAACTCGAC
1119088 ACCGAGATCCATCACC
66 ACCGAGATCCATCACC
* * * *
1119104 TCATCGAGCCGATTCTCTACTTCGACACCGAGATCCATCACCTCATCGAGCCGATTCTCCAATTC
1 TCATCGAGCCGATTCTCTACCTCGACACCGAGATCCATCACCTC-T--AGCCGACTCTACAACTC
1119169 GACACCGAGATCCATCACC
63 GACACCGAGATCCATCACC
* *
1119188 TTATCGAGCCGATTCTAC-ACCTCGACACCGAGATCCATCACCTCTAGCCGACTCTACACCTCGA
1 TCATCGAGCCGATTCT-CTACCTCGACACCGAGATCCATCACCTCTAGCCGACTCTACAACTCGA
1119252 CACCGAGATCCATCACC
65 CACCGAGATCCATCACC
1119269 T
1 T
1119270 ATTCCATCAC
Statistics
Matches: 143, Mismatches: 13, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
75 42 0.29
79 1 0.01
81 33 0.23
83 1 0.01
84 65 0.45
85 1 0.01
ACGTcount: A:0.25, C:0.40, G:0.13, T:0.22
Consensus pattern (81 bp):
TCATCGAGCCGATTCTCTACCTCGACACCGAGATCCATCACCTCTAGCCGACTCTACAACTCGAC
ACCGAGATCCATCACC
Found at i:1119404 original size:21 final size:21
Alignment explanation
Indices: 1119368--1119537 Score: 173
Period size: 21 Copynumber: 8.1 Consensus size: 21
1119358 ACCTCCATGG
*
1119368 GATGAGTTAGGTGCTTTACGT
1 GATGAGGTAGGTGCTTTACGT
* * *
1119389 GATAAGGTATGTGCTTTATGT
1 GATGAGGTAGGTGCTTTACGT
* *
1119410 GATGAGGTCGGTGCTTTACAT
1 GATGAGGTAGGTGCTTTACGT
** *
1119431 GATGA-CAATGATGCTTTACGT
1 GATGAGGTA-GGTGCTTTACGT
*
1119452 GATGAGGCAGGTGCTTTACGT
1 GATGAGGTAGGTGCTTTACGT
* *
1119473 GGTGAGGTAAGTGCTTTACGT
1 GATGAGGTAGGTGCTTTACGT
**
1119494 GATGA-CAATGGTGCTTTACGT
1 GATGAGGTA-GGTGCTTTACGT
*
1119515 GATGAGGTAGGTGCTCTACGT
1 GATGAGGTAGGTGCTTTACGT
1119536 GA
1 GA
1119538 GATTGTTTCA
Statistics
Matches: 118, Mismatches: 27, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
20 1 0.01
21 115 0.97
22 2 0.02
ACGTcount: A:0.22, C:0.12, G:0.33, T:0.34
Consensus pattern (21 bp):
GATGAGGTAGGTGCTTTACGT
Found at i:1119452 original size:63 final size:63
Alignment explanation
Indices: 1119379--1119537 Score: 228
Period size: 63 Copynumber: 2.5 Consensus size: 63
1119369 ATGAGTTAGG
* * * **
1119379 TGCTTTACGTGATAAGGTATGTGCTTTATGTGATGAGGTCGGTGCTTTACATGATGACAATGA
1 TGCTTTACGTGATGAGGTAGGTGCTTTACGTGATGAGGTAAGTGCTTTACATGATGACAATGA
* * * *
1119442 TGCTTTACGTGATGAGGCAGGTGCTTTACGTGGTGAGGTAAGTGCTTTACGTGATGACAATGG
1 TGCTTTACGTGATGAGGTAGGTGCTTTACGTGATGAGGTAAGTGCTTTACATGATGACAATGA
*
1119505 TGCTTTACGTGATGAGGTAGGTGCTCTACGTGA
1 TGCTTTACGTGATGAGGTAGGTGCTTTACGTGA
1119538 GATTGTTTCA
Statistics
Matches: 84, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
63 84 1.00
ACGTcount: A:0.21, C:0.13, G:0.32, T:0.34
Consensus pattern (63 bp):
TGCTTTACGTGATGAGGTAGGTGCTTTACGTGATGAGGTAAGTGCTTTACATGATGACAATGA
Found at i:1119983 original size:20 final size:21
Alignment explanation
Indices: 1119863--1119994 Score: 117
Period size: 21 Copynumber: 6.3 Consensus size: 21
1119853 GAAAAAGCCT
* *
1119863 GATCCACCTACCATTGTTCAG
1 GATCCACCTCCCATCGTTCAG
* * **
1119884 GTTCCACCTCCTATTATTCAG
1 GATCCACCTCCCATCGTTCAG
* * *
1119905 GATTCACCTCTCATAGTTCAAG
1 GATCCACCTCCCATCGTTC-AG
*
1119927 AGA-CC-CCTCCCATCGTTCAA
1 -GATCCACCTCCCATCGTTCAG
1119947 GATCCACCTCCCATCGTTCAG
1 GATCCACCTCCCATCGTTCAG
* *
1119968 GATCCACC-CGCATCGTTTAG
1 GATCCACCTCCCATCGTTCAG
1119988 GATCCAC
1 GATCCAC
1119995 ATTCAATACT
Statistics
Matches: 90, Mismatches: 17, Indels: 9
0.78 0.15 0.08
Matches are distributed among these distances:
19 2 0.02
20 20 0.22
21 63 0.70
22 3 0.03
23 2 0.02
ACGTcount: A:0.23, C:0.36, G:0.14, T:0.27
Consensus pattern (21 bp):
GATCCACCTCCCATCGTTCAG
Found at i:1123422 original size:34 final size:34
Alignment explanation
Indices: 1123377--1123443 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
1123367 AATTGTGAAT
* * *
1123377 TCGCAATTCGAAACTCAAATTTGCAACACGAAAA
1 TCGCAACTCGAAAATCAAATTCGCAACACGAAAA
* *
1123411 TCGCAACTCGAAAATGAAATTCGCAACTCGAAA
1 TCGCAACTCGAAAATCAAATTCGCAACACGAAA
1123444 TGGAGTTGCG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.43, C:0.24, G:0.13, T:0.19
Consensus pattern (34 bp):
TCGCAACTCGAAAATCAAATTCGCAACACGAAAA
Found at i:1123434 original size:20 final size:20
Alignment explanation
Indices: 1123406--1123443 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1123396 TTTGCAACAC
1123406 GAAAATCGCAACTCGAAAAT
1 GAAAATCGCAACTCGAAAAT
*
1123426 GAAATTCGCAACTCGAAA
1 GAAAATCGCAACTCGAAA
1123444 TGGAGTTGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.21, G:0.16, T:0.16
Consensus pattern (20 bp):
GAAAATCGCAACTCGAAAAT
Found at i:1123491 original size:40 final size:40
Alignment explanation
Indices: 1123446--1123577 Score: 174
Period size: 40 Copynumber: 3.3 Consensus size: 40
1123436 ACTCGAAATG
** *
1123446 GAGTTGCGAATTCAAAATTCGAGTTGCGAATTCGATTTTC
1 GAGTTGCGAATTCAATTTTCGAGTTGCGAATTTGATTTTC
* * * * *
1123486 AAGTTGCGAATTCGATTTTCAAGTTGCGAATTTGAATATC
1 GAGTTGCGAATTCAATTTTCGAGTTGCGAATTTGATTTTC
*
1123526 GAGTTGCGAATTCAATTTTTGAGTTGCGAATTTGATTTTC
1 GAGTTGCGAATTCAATTTTCGAGTTGCGAATTTGATTTTC
*
1123566 GAGTTGCAAATT
1 GAGTTGCGAATT
1123578 TGAGTTGCGA
Statistics
Matches: 77, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 77 1.00
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.39
Consensus pattern (40 bp):
GAGTTGCGAATTCAATTTTCGAGTTGCGAATTTGATTTTC
Found at i:1123544 original size:60 final size:61
Alignment explanation
Indices: 1123447--1123580 Score: 182
Period size: 60 Copynumber: 2.2 Consensus size: 61
1123437 CTCGAAATGG
* *
1123447 AGTTGCGAA-TTCAAAATTCGAGTTGCGAATTCGATTTTCAAGTTGCGAATTCGATTTTCA
1 AGTTGCGAATTTGAAAATTCGAGTTGCGAATTCAATTTTCAAGTTGCGAATTCGATTTTCA
* ** * *
1123507 AGTTGCGAATTTGAATA-TCGAGTTGCGAATTCAATTTTTGAGTTGCGAATTTGATTTTCG
1 AGTTGCGAATTTGAAAATTCGAGTTGCGAATTCAATTTTCAAGTTGCGAATTCGATTTTCA
*
1123567 AGTTGCAAATTTGA
1 AGTTGCGAATTTGA
1123581 GTTGCGAATT
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
60 60 0.92
61 5 0.08
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.39
Consensus pattern (61 bp):
AGTTGCGAATTTGAAAATTCGAGTTGCGAATTCAATTTTCAAGTTGCGAATTCGATTTTCA
Found at i:1123580 original size:20 final size:20
Alignment explanation
Indices: 1123446--1123577 Score: 156
Period size: 20 Copynumber: 6.6 Consensus size: 20
1123436 ACTCGAAATG
* **
1123446 GAGTTGCGAATTCAAAATTC
1 GAGTTGCGAATTCGATTTTC
1123466 GAGTTGCGAATTCGATTTTC
1 GAGTTGCGAATTCGATTTTC
*
1123486 AAGTTGCGAATTCGATTTTC
1 GAGTTGCGAATTCGATTTTC
* * * *
1123506 AAGTTGCGAATTTGAATATC
1 GAGTTGCGAATTCGATTTTC
* *
1123526 GAGTTGCGAATTCAATTTTT
1 GAGTTGCGAATTCGATTTTC
*
1123546 GAGTTGCGAATTTGATTTTC
1 GAGTTGCGAATTCGATTTTC
*
1123566 GAGTTGCAAATT
1 GAGTTGCGAATT
1123578 TGAGTTGCGA
Statistics
Matches: 95, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 95 1.00
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.39
Consensus pattern (20 bp):
GAGTTGCGAATTCGATTTTC
Found at i:1127113 original size:16 final size:15
Alignment explanation
Indices: 1127091--1127129 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
1127081 GAAATCATTG
1127091 AAAAATTATATAGAAA
1 AAAAATTATATA-AAA
* *
1127107 TAAAATTATGTAAAA
1 AAAAATTATATAAAA
1127122 AAAAATTA
1 AAAAATTA
1127130 GAGACGGGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (15 bp):
AAAAATTATATAAAA
Found at i:1127295 original size:20 final size:21
Alignment explanation
Indices: 1127269--1127339 Score: 62
Period size: 20 Copynumber: 3.5 Consensus size: 21
1127259 AAACATTTGC
*
1127269 GTTGCGAAATT-TAAATTCGCA
1 GTTGCGAAATTCTAAAATCG-A
1127290 -TTGCG-AATTCTAAAATCGA
1 GTTGCGAAATTCTAAAATCGA
* *
1127309 GTTGCGAAA-AC-AAAATTCGT
1 GTTGCGAAATTCTAAAA-TCGA
1127329 GTTGCGAAATT
1 GTTGCGAAATT
1127340 GAAACTTGCG
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
19 9 0.22
20 30 0.73
21 2 0.05
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (21 bp):
GTTGCGAAATTCTAAAATCGA
Found at i:1127357 original size:60 final size:60
Alignment explanation
Indices: 1127269--1127396 Score: 143
Period size: 60 Copynumber: 2.1 Consensus size: 60
1127259 AAACATTTGC
* * * *
1127269 GTTGCGAAATTTAAATTCGCATTGCGAATT-CTAAAATCGAGTTGCGAAAACAAAATTCGT
1 GTTGCGAAATTGAAATTCGCATTACGAATTAC-AAAATCGAGTTGCGAAAACAAAACTCAT
* ** **
1127329 GTTGCGAAATTGAAACTT-GCGTTACGAATTACAAAATCTTGTTGCGAAAAGGAAACTCAT
1 GTTGCGAAATTGAAA-TTCGCATTACGAATTACAAAATCGAGTTGCGAAAACAAAACTCAT
1127389 GTTGCGAA
1 GTTGCGAA
1127397 TTTAAAAATC
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
60 54 0.95
61 3 0.05
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.29
Consensus pattern (60 bp):
GTTGCGAAATTGAAATTCGCATTACGAATTACAAAATCGAGTTGCGAAAACAAAACTCAT
Found at i:1127397 original size:40 final size:40
Alignment explanation
Indices: 1127309--1127436 Score: 125
Period size: 40 Copynumber: 3.2 Consensus size: 40
1127299 CTAAAATCGA
* ** * *
1127309 GTTGCGAA-AACAAAATTCGTGTTGCGAAATTGAAACTTGC
1 GTTGCGAATTACAAAA-TCGTGTTGCGAAAAAGAAACTCGT
* * * *
1127349 GTTACGAATTACAAAATCTTGTTGCGAAAAGGAAACTCAT
1 GTTGCGAATTACAAAATCGTGTTGCGAAAAAGAAACTCGT
* *
1127389 GTTGCGAATTTA-AAAATCGAGTTGCGAAAAAGAAATTCGT
1 GTTGCGAA-TTACAAAATCGTGTTGCGAAAAAGAAACTCGT
1127429 GTTGCGAA
1 GTTGCGAA
1127437 ATTGTCAAAT
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
40 63 0.88
41 9 0.12
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.27
Consensus pattern (40 bp):
GTTGCGAATTACAAAATCGTGTTGCGAAAAAGAAACTCGT
Found at i:1127432 original size:20 final size:20
Alignment explanation
Indices: 1127309--1127437 Score: 68
Period size: 20 Copynumber: 6.5 Consensus size: 20
1127299 CTAAAATCGA
1127309 GTTGCGAAAACA-AAATTCGT
1 GTTGCGAAAA-AGAAATTCGT
** *
1127329 GTTGCGAAATTGAAACTT-GC
1 GTTGCGAAAAAGAAA-TTCGT
* ** * * *
1127349 GTTACGAATTACAAAATCTT
1 GTTGCGAAAAAGAAATTCGT
* * *
1127369 GTTGCGAAAAGGAAACTCAT
1 GTTGCGAAAAAGAAATTCGT
* *
1127389 GTTGCGAATTTAA-AAA-TCGA
1 GTTGCGAA--AAAGAAATTCGT
1127409 GTTGCGAAAAAGAAATTCGT
1 GTTGCGAAAAAGAAATTCGT
1127429 GTTGCGAAA
1 GTTGCGAAA
1127438 TTGTCAAATT
Statistics
Matches: 79, Mismatches: 23, Indels: 14
0.68 0.20 0.12
Matches are distributed among these distances:
18 2 0.03
19 4 0.05
20 67 0.85
21 5 0.06
22 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.27
Consensus pattern (20 bp):
GTTGCGAAAAAGAAATTCGT
Found at i:1127467 original size:20 final size:20
Alignment explanation
Indices: 1127421--1127481 Score: 86
Period size: 20 Copynumber: 3.0 Consensus size: 20
1127411 TGCGAAAAAG
* *
1127421 AAATTCGTGTTGCGAAATTGTC
1 AAATTCGAGTTGC-AAATT-CC
1127443 AAATTCGAGTTGCAAATTCC
1 AAATTCGAGTTGCAAATTCC
1127463 AAATTCGAGTTGCAAATTC
1 AAATTCGAGTTGCAAATTC
1127482 GTAAATTGTG
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
20 20 0.54
21 5 0.14
22 12 0.32
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (20 bp):
AAATTCGAGTTGCAAATTCC
Found at i:1129451 original size:12 final size:12
Alignment explanation
Indices: 1129434--1129458 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1129424 GGCTACCTAA
1129434 TTTTGTTGAATT
1 TTTTGTTGAATT
1129446 TTTTGTTGAATT
1 TTTTGTTGAATT
1129458 T
1 T
1129459 AGCATGAGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.16, T:0.68
Consensus pattern (12 bp):
TTTTGTTGAATT
Found at i:1138018 original size:52 final size:52
Alignment explanation
Indices: 1137956--1138058 Score: 197
Period size: 52 Copynumber: 2.0 Consensus size: 52
1137946 AAATTGGACA
1137956 CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
1 CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
*
1138008 CATAGAAATAGGAGACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAG
1 CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAG
1138059 AATATTATAA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (52 bp):
CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
Found at i:1142618 original size:52 final size:52
Alignment explanation
Indices: 1142556--1142657 Score: 195
Period size: 52 Copynumber: 2.0 Consensus size: 52
1142546 AATTGGACAC
1142556 ATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGGT
1 ATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGGT
*
1142608 ATAGAAATAGGAGACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAG
1 ATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAG
1142658 AATATTATAA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.42, C:0.12, G:0.24, T:0.23
Consensus pattern (52 bp):
ATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGGT
Found at i:1145054 original size:20 final size:19
Alignment explanation
Indices: 1145017--1145077 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 19
1145007 GTATCGATAC
*
1145017 AAAATGAT-ATACCAGGTAA
1 AAAATGATAAAACC-GGTAA
*
1145036 AAATATGATAAAACCGGTATC
1 AAA-ATGATAAAACCGGTA-A
1145057 AAAATGATAAAACCGGTAA
1 AAAATGATAAAACCGGTAA
1145076 AA
1 AA
1145078 CGTTACCGGA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
19 5 0.14
20 24 0.67
21 7 0.19
ACGTcount: A:0.54, C:0.11, G:0.15, T:0.20
Consensus pattern (19 bp):
AAAATGATAAAACCGGTAA
Found at i:1145154 original size:181 final size:183
Alignment explanation
Indices: 1144819--1145293 Score: 686
Period size: 182 Copynumber: 2.6 Consensus size: 183
1144809 GATCCAAATT
* * * **
1144819 AAAAATGTGTCGATCCAAAACGATATAACAGGTAAAACTATGACAAAACCGGTATTGAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* * * * * *
1144884 AAACTGGTAAAGCGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTTC
66 AAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
*
1144949 GTGAATTTAAAAGAGAAGCAGTTTTA-AATCCTATAAAGTGTCGATACTTT-TA
131 GTGAATTTAAAAGAGAAGCAGTTTTAGAAT-CTATAAAGTGTCGATACTTTAAA
* * *
1145001 AAAAATGTATCGATACAAAATGATATACCAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* * *
1145066 AAACCGGTAAAACGTTACCGGATATATTAAAAGTGTTGATACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
** *
1145130 GTGAATTTAAAAGAGAAGCAGTTTTAGCGTCTATAATGTGTCGATACTTTAAA
131 GTGAATTTAAAAGAGAAGCAGTTTTAGAATCTATAAAGTGTCGATACTTTAAA
* *
1145183 AAAAATATATCGATCCACAACGATATAACAGGTAAAAAATATGATAAAACCGGTATCAAAATGAT
1 AAAAATGTATCGATCCAAAACGATATAACAGGT-AAAAATATGATAAAACCGGTATCAAAATGAT
* *
1145248 AAAATCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
65 AAAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTT
1145294 CGTAAGTACG
Statistics
Matches: 261, Mismatches: 29, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
181 63 0.24
182 125 0.48
183 73 0.28
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.27
Consensus pattern (183 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
AAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAGAGAAGCAGTTTTAGAATCTATAAAGTGTCGATACTTTAAA
Found at i:1145237 original size:21 final size:20
Alignment explanation
Indices: 1145213--1145260 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
1145203 CGATATAACA
1145213 GGTAAAAAATATGATAAAACC
1 GGTAAAAAA-ATGATAAAACC
** *
1145234 GGTATCAAAATGATAAAATC
1 GGTAAAAAAATGATAAAACC
1145254 GGTAAAA
1 GGTAAAA
1145261 CGATACCGGA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.54, C:0.08, G:0.17, T:0.21
Consensus pattern (20 bp):
GGTAAAAAAATGATAAAACC
Found at i:1147501 original size:21 final size:21
Alignment explanation
Indices: 1147475--1147515 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1147465 AAGATAATCA
1147475 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAT
* *
1147496 AGAGTCGAAGATACACTTGA
1 AGAGTCGAAGAGAAACTTGA
1147516 GAGGCATAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.41, C:0.12, G:0.27, T:0.20
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAT
Found at i:1147594 original size:33 final size:33
Alignment explanation
Indices: 1147552--1147617 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
1147542 AAATAGATGG
*
1147552 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
1147585 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
1147618 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:1149429 original size:19 final size:19
Alignment explanation
Indices: 1149405--1149453 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
1149395 AATGTAGGGT
1149405 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
1149424 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
1149443 AAATTTTGTAT
1 TAATTTTGTAT
1149454 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.35, C:0.02, G:0.10, T:0.53
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:1150030 original size:200 final size:200
Alignment explanation
Indices: 1149687--1150450 Score: 1298
Period size: 200 Copynumber: 3.8 Consensus size: 200
1149677 AATTTACAAT
* *
1149687 ATGGCAAATAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
*
1149752 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTACAAGTATACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
* *
1149817 ATGAGAGAATAGGTCTACATAATATATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
1149882 AATGA
196 AATGA
*
1149887 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCGATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* *
1149952 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
* *
1150017 ATGAGAGAATAGGTCTAAATAATGTATCGATACTTTTGTAGTTTGTGTCGATATATTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
1150082 AATGA
196 AATGA
* *
1150087 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCTATATATAAAAAGTGTCGATCCCATAACCAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
*
1150152 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
*
1150217 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
1150282 AATGA
196 AATGA
* *
1150287 ATGGCAAAGAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* * * *
1150352 CGAAACTCAAAAGTATAATGTATTAGGTAATTTTTCAATCTAACAGGTATAAGTATACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
* *
1150417 ATGGGAGAATTA-GTATATAAT-ATGTATCGACACT
131 ATGAGAGAA-TAGGTCTA-AATAATGTATCGACACT
1150451 GTTTAATGTT
Statistics
Matches: 533, Mismatches: 29, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
200 528 0.99
201 5 0.01
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (200 bp):
ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
AATGA
Found at i:1150863 original size:120 final size:120
Alignment explanation
Indices: 1150650--1150896 Score: 422
Period size: 120 Copynumber: 2.1 Consensus size: 120
1150640 ACATCGGAAC
*
1150650 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACTGGTATAAATATACCGGTTTTATGAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
*
1150715 AAATAGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCAGTACTTTATGT
66 AAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCAGTACTTTATGT
* * *
1150770 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
* * *
1150835 GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGT
66 AAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCAGTACTTTATGT
1150890 CCAGAAT
1 CCAGAAT
1150897 GGAAGAAAAA
Statistics
Matches: 119, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
120 119 1.00
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.38
Consensus pattern (120 bp):
CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
AAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCAGTACTTTATGT
Found at i:1151078 original size:183 final size:183
Alignment explanation
Indices: 1150770--1151258 Score: 906
Period size: 183 Copynumber: 2.7 Consensus size: 183
1150760 TACTTTATGT
* * *
1150770 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
*
1150835 GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
*
1150900 AGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAAC
131 AGAAAAATATGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAAC
* *
1150953 CCAGAATTATAATGTAATAGATAGTTTTGTAATATAACCAGTATAAATATACCGGTTTTATGAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
1151018 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
1151083 AGAAAAATATGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAAC
131 AGAAAAATATGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAAC
*
1151136 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACTGGTTTTATGAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
1151201 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCA
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCA
1151259 AAATTATAAT
Statistics
Matches: 296, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
183 296 1.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (183 bp):
CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
AGAAAAATATGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAAC
Found at i:1151104 original size:486 final size:486
Alignment explanation
Indices: 1150539--1151543 Score: 1884
Period size: 486 Copynumber: 2.1 Consensus size: 486
1150529 AACCCGTAAC
* *
1150539 TCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTTCTTTATGTCCAGAATGGAAGAAAAC
1 TCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAA
*
1150604 TGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATA
66 TATGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATA
*
1150669 GATAATTTTGTAATATAACTGGTATAAATATACCGGTTTTATGAGCAAATAGGTCTACAACCTAT
131 GATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCAAATAGGTCTACAACCTAT
* *
1150734 ATCGACACTTTTTAATTTTGTGTCAGTACTTTATGTCCAGAATTATAATGTACTAGATAATTTTG
196 ATCGACACTTTTTAATATTGTGTCAGTACTTTATGTCCAAAATTATAATGTACTAGATAATTTTG
**
1150799 TAATATAACCGGTATAAGTATACCGGTTTTATTAGCGAATAGGTCTACAACCTATGTCGACACTT
261 TAATATAACCGGTATAAGTATACCAATTTTATTAGCGAATAGGTCTACAACCTATGTCGACACTT
1150864 TTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGTCAAAAA
326 TTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGTCAAAAA
*
1150929 GTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAGTTTTGTAATATAACCAG
391 GTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCAG
1150994 TATAAATATACCGGTTTTATGAGCGAATAGG
456 TATAAATATACCGGTTTTATGAGCGAATAGG
1151025 TCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAA
1 TCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAA
1151090 TATGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATA
66 TATGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATA
* *
1151155 GATAATTTTGTAATATAACCGGTATAAATATACTGGTTTTATGAGCGAATAGGTCTACAACCTAT
131 GATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCAAATAGGTCTACAACCTAT
*
1151220 ATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAAAATTATAATGTACTAGATAATTTTG
196 ATCGACACTTTTTAATATTGTGTCAGTACTTTATGTCCAAAATTATAATGTACTAGATAATTTTG
*
1151285 TAATATAACCGGTATAAGTATACCAATTTTATTAGCGAATAGGTTTACAACCTATGTCGACACTT
261 TAATATAACCGGTATAAGTATACCAATTTTATTAGCGAATAGGTCTACAACCTATGTCGACACTT
1151350 TTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGTCAAAAA
326 TTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGTCAAAAA
*
1151415 GTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGG
391 GTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCAG
1151480 TATAAATATACCGGTTTTATGAGCGAATAGG
456 TATAAATATACCGGTTTTATGAGCGAATAGG
1151511 TCTACAACCTATATCGACACTTTTTAATATTGT
1 TCTACAACCTATATCGACACTTTTTAATATTGT
1151544 ATCGCTAATT
Statistics
Matches: 505, Mismatches: 14, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
486 505 1.00
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (486 bp):
TCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAA
TATGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATA
GATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCAAATAGGTCTACAACCTAT
ATCGACACTTTTTAATATTGTGTCAGTACTTTATGTCCAAAATTATAATGTACTAGATAATTTTG
TAATATAACCGGTATAAGTATACCAATTTTATTAGCGAATAGGTCTACAACCTATGTCGACACTT
TTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGTCAAAAA
GTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCAG
TATAAATATACCGGTTTTATGAGCGAATAGG
Found at i:1151266 original size:303 final size:303
Alignment explanation
Indices: 1150957--1151543 Score: 1075
Period size: 303 Copynumber: 1.9 Consensus size: 303
1150947 CGGAACCCAG
* **
1150957 AATTATAATGTAATAGATAGTTTTGTAATATAACCAGTATAAATATACCGGTTTTATGAGCGAAT
1 AATTATAATGTAATAGATAATTTTGTAATATAACCAGTATAAATATACCAATTTTATGAGCGAAT
1151022 AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAA
66 AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAA
1151087 AAATATGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTA
131 AAATATGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTA
*
1151152 ATAGATAATTTTGTAATATAACCGGTATAAATATACTGGTTTTATGAGCGAATAGGTCTACAACC
196 ATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACC
1151217 TATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAA
261 TATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAA
* * * *
1151260 AATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCAATTTTATTAGCGAAT
1 AATTATAATGTAATAGATAATTTTGTAATATAACCAGTATAAATATACCAATTTTATGAGCGAAT
* *
1151325 AGGTTTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAA
66 AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAA
*
1151390 AAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTA
131 AAATATGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTA
1151455 ATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACC
196 ATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACC
1151520 TATATCGACACTTTTTAATATTGT
261 TATATCGACACTTTTTAATATTGT
1151544 ATCGCTAATT
Statistics
Matches: 273, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
303 273 1.00
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (303 bp):
AATTATAATGTAATAGATAATTTTGTAATATAACCAGTATAAATATACCAATTTTATGAGCGAAT
AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAA
AAATATGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTA
ATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACC
TATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAA
Found at i:1151353 original size:120 final size:120
Alignment explanation
Indices: 1151140--1151378 Score: 406
Period size: 120 Copynumber: 2.0 Consensus size: 120
1151130 CGGAACCCAG
***
1151140 AATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACTGGTTTTATGAGCGAAT
1 AATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCAATTTTATGAGCGAAT
1151205 AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAA
66 AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAA
* * *
1151260 AATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCAATTTTATTAGCGAAT
1 AATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCAATTTTATGAGCGAAT
* *
1151325 AGGTTTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCA
66 AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCA
1151379 GAATGGAAGA
Statistics
Matches: 111, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
120 111 1.00
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (120 bp):
AATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCAATTTTATGAGCGAAT
AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAA
Found at i:1154524 original size:23 final size:23
Alignment explanation
Indices: 1154474--1154518 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1154464 TACCTATTTT
* *
1154474 ATTATATAAGCGCTATCTATTAC
1 ATTATATAAGCGCTACCTAATAC
*
1154497 ATTATATAAGCGTTACCTAATA
1 ATTATATAAGCGCTACCTAATA
1154519 TGTTATTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:1154607 original size:87 final size:87
Alignment explanation
Indices: 1154461--1154639 Score: 349
Period size: 87 Copynumber: 2.1 Consensus size: 87
1154451 GTCCAGAATG
1154461 AAATACCTATTTTATTATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATT
1 AAATACCTATTTTATTATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATT
1154526 GTACTTGATAATATTTCCCGTT
66 GTACTTGATAATATTTCCCGTT
1154548 AAATACCTATTTTATTATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATT
1 AAATACCTATTTTATTATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATT
*
1154613 GTACTTGATAATATTTCCGGTT
66 GTACTTGATAATATTTCCCGTT
1154635 AAATA
1 AAATA
1154640 TTATAACATA
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
87 91 1.00
ACGTcount: A:0.34, C:0.14, G:0.09, T:0.43
Consensus pattern (87 bp):
AAATACCTATTTTATTATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATT
GTACTTGATAATATTTCCCGTT
Found at i:1154611 original size:23 final size:23
Alignment explanation
Indices: 1154561--1154605 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1154551 TACCTATTTT
* *
1154561 ATTATATAAGCGCTATCTATTAC
1 ATTATATAAGCGCTACCTAATAC
*
1154584 ATTATATAAGCGTTACCTAATA
1 ATTATATAAGCGCTACCTAATA
1154606 TGTTATTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:1156985 original size:21 final size:21
Alignment explanation
Indices: 1156914--1156988 Score: 73
Period size: 21 Copynumber: 3.5 Consensus size: 21
1156904 ATGATGCATG
* *
1156914 GAGTATCGATACATGTATGAA
1 GAGTATCGATACCTATATGAA
* *
1156935 TAGTATCAATACC-ATATGGAA
1 GAGTATCGATACCTATAT-GAA
1156956 GAGGTATCGATACCTATAT-AGA
1 GA-GTATCGATACCTATATGA-A
1156978 GAGTATCGATA
1 GAGTATCGATA
1156989 TCAGGGGGAC
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
20 3 0.07
21 24 0.55
22 13 0.30
23 4 0.09
ACGTcount: A:0.39, C:0.12, G:0.21, T:0.28
Consensus pattern (21 bp):
GAGTATCGATACCTATATGAA
Found at i:1158649 original size:23 final size:23
Alignment explanation
Indices: 1158609--1158665 Score: 55
Period size: 23 Copynumber: 2.4 Consensus size: 23
1158599 ATAAATATTT
*
1158609 TAAAATATTTTCATAAT-ATTATGAA
1 TAAAAT-TTTTCAGAATAATT-T-AA
1158634 TAAAATTTTT-AGAATAATTTAA
1 TAAAATTTTTCAGAATAATTTAA
1158656 TATAAATTTT
1 TA-AAATTTT
1158666 ATAAATACAT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
22 4 0.14
23 12 0.41
24 7 0.24
25 6 0.21
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (23 bp):
TAAAATTTTTCAGAATAATTTAA
Found at i:1162521 original size:37 final size:36
Alignment explanation
Indices: 1162446--1162521 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
1162436 TTTTTATATT
*
1162446 TTTAATTTTGTAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
* *
1162482 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAA-AAAATTATATAAATATTAT-CAA
1162519 TTT
1 TTT
1162522 GTAATATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
36 26 0.74
37 9 0.26
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (36 bp):
TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
Found at i:1162703 original size:20 final size:20
Alignment explanation
Indices: 1162667--1162704 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1162657 ATCCTATTCC
**
1162667 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
1162687 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
1162705 ATGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:1162974 original size:15 final size:15
Alignment explanation
Indices: 1162956--1162986 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1162946 AAATTCTAAA
1162956 TATTTAAATAAAAAT
1 TATTTAAATAAAAAT
*
1162971 TATTTATATAAAAAT
1 TATTTAAATAAAAAT
1162986 T
1 T
1162987 CTATATGTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATTTAAATAAAAAT
Found at i:1164471 original size:118 final size:119
Alignment explanation
Indices: 1164249--1164474 Score: 260
Period size: 118 Copynumber: 1.9 Consensus size: 119
1164239 ACGGATGAAG
* * * * *
1164249 TAAAATGTAAAAGAAACACCAAAGTAGAAAGGGAGATTCAACTTTATTAATGGATAAGAGTCTAA
1 TAAAATGTAAAAGAAACACCAAAGTAGAAAGAGAGATGCAACCTTAGTAATGGATAACAGTCTAA
* * * *
1164314 AAGAGGATGTTTAATATAAAACAAATACAAGTGCGGCACTTGGGTTTGCACAAT
66 AAGAGAAAGTTCAATATAAAACAAATACAAGTGCAGCACTTGGGTTTGCACAAT
* * *
1164368 TAAAATGTAAACA-AAATACCGAAGTAG-AAGAGAGATGCAACCTTAGTAATTGATAACAGTCTG
1 TAAAATGTAAA-AGAAACACCAAAGTAGAAAGAGAGATGCAACCTTAGTAATGGATAACAGTCT-
* * * **
1164431 AAAA-AGAAAGTTCAGTATAAAATATATACCGGTGCAGCACTTGG
64 AAAAGAGAAAGTTCAATATAAAACAAATACAAGTGCAGCACTTGG
1164475 ATGAGTACAT
Statistics
Matches: 88, Mismatches: 17, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
118 60 0.68
119 27 0.31
120 1 0.01
ACGTcount: A:0.45, C:0.12, G:0.20, T:0.23
Consensus pattern (119 bp):
TAAAATGTAAAAGAAACACCAAAGTAGAAAGAGAGATGCAACCTTAGTAATGGATAACAGTCTAA
AAGAGAAAGTTCAATATAAAACAAATACAAGTGCAGCACTTGGGTTTGCACAAT
Found at i:1167304 original size:29 final size:29
Alignment explanation
Indices: 1167272--1167328 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
1167262 ATTTCAAAAT
1167272 TATAATTATGAAA-AAAATATTAATTTATA
1 TATAATTAT-AAATAAAATATTAATTTATA
* *
1167301 TATATTTATAAATAAAATATTTATTTAT
1 TATAATTATAAATAAAATATTAATTTAT
1167329 TTAGAAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 3 0.12
29 22 0.88
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (29 bp):
TATAATTATAAATAAAATATTAATTTATA
Found at i:1167507 original size:116 final size:113
Alignment explanation
Indices: 1167293--1167515 Score: 272
Period size: 116 Copynumber: 1.9 Consensus size: 113
1167283 AAAAAATATT
* * * *
1167293 AATTTATATATATTTATAAATAAAATATTTATTTATTTAGAAATATCAGAAAATGACTTCTAGGT
1 AATTAATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAATGACATCCAGGT
* *
1167358 GCCTTAAGACAGCTCTTTTCTTCGATATTAAAAAATAAATAATTAAAAC
66 GCCTTAAGACA-CTCCTTTCTTCAATATTAAAAAATAAATAATTAAAAC
**
1167407 AATTAATATATAATTTATAAAATAGGATATTTATTTATTTAAAAATATCAGAAAATGGACATCCA
1 AATTAATATAT-ATTTAT-AAATAAAATATTTATTTATTTAAAAATATCAGAAAAT-GACATCCA
* *
1167472 GTTG-TTTGAAGACTA-TCCTTTCTT-AATATTGAAAAAATAAATAA
63 GGTGCCTT-AAGAC-ACTCCTTTCTTCAATATT-AAAAAATAAATAA
1167516 ATATTAAAAC
Statistics
Matches: 93, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
114 10 0.11
115 11 0.12
116 57 0.61
117 14 0.15
118 1 0.01
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.38
Consensus pattern (113 bp):
AATTAATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAATGACATCCAGGT
GCCTTAAGACACTCCTTTCTTCAATATTAAAAAATAAATAATTAAAAC
Found at i:1167586 original size:22 final size:24
Alignment explanation
Indices: 1167561--1167607 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
1167551 TAAATAAGAT
1167561 TTTAATAAATAAATA-A-ATATTA
1 TTTAATAAATAAATATATATATTA
* *
1167583 TTTATTATATAAATATATATATTA
1 TTTAATAAATAAATATATATATTA
1167607 T
1 T
1167608 GGCTAAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 13 0.62
23 1 0.05
24 7 0.33
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
TTTAATAAATAAATATATATATTA
Found at i:1167607 original size:17 final size:18
Alignment explanation
Indices: 1167573--1167607 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
1167563 TAATAAATAA
*
1167573 ATAAATATTATTTATTAT
1 ATAAATATTATATATTAT
1167591 ATAAATA-TATATATTAT
1 ATAAATATTATATATTAT
1167608 GGCTAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
ATAAATATTATATATTAT
Found at i:1169092 original size:3 final size:3
Alignment explanation
Indices: 1169086--1169152 Score: 77
Period size: 3 Copynumber: 23.0 Consensus size: 3
1169076 AATAATTATT
*
1169086 TAA TAA TAA TAA T-A TAA T-A TAA T-A TATA TAA TAT TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA
**
1169129 TAA TAA TTT TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA
1169153 AAACAAAAAT
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
2 6 0.11
3 45 0.83
4 3 0.06
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:1169411 original size:76 final size:76
Alignment explanation
Indices: 1169309--1169784 Score: 862
Period size: 76 Copynumber: 6.3 Consensus size: 76
1169299 GAGGTCCTAA
* *
1169309 AAACATCATGCACTGAAGGGCTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1169374 AGGCTTTTTGG
66 AGGCTTTTTGG
* * *
1169385 AAACATCATGCACTGCAAGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCTGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1169450 AGGCTTTTTGG
66 AGGCTTTTTGG
*
1169461 AAACATCATGCACTGTAGGACTTACAGATGGCCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1169526 AGGCTTTTTGG
66 AGGCTTTTTGG
1169537 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1169602 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
1169613 AAACGTCATGCACTGTAGGACTTACAGACGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1169678 AGGCTTTTTGG
66 AGGCTTTTTGG
*
1169689 AAACATCATGCACTGTAGGACTTACAGATTACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1169754 AGGCTTTTTGG
66 AGGCTTTTTGG
*
1169765 AAACATCATGCACTTTAGGA
1 AAACATCATGCACTGTAGGA
1169785 AAAACATCAA
Statistics
Matches: 385, Mismatches: 15, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 385 1.00
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (76 bp):
AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
AGGCTTTTTGG
Found at i:1169809 original size:52 final size:52
Alignment explanation
Indices: 1169733--1169836 Score: 190
Period size: 52 Copynumber: 2.0 Consensus size: 52
1169723 TAAGGCTTTG
*
1169733 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTTTAGGA
1 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGA
*
1169785 AAAACATCAAAAAGCTGCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGA
1 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGA
1169837 CTTACAGATG
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.22
Consensus pattern (52 bp):
AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGA
Found at i:1169812 original size:204 final size:204
Alignment explanation
Indices: 1169581--1169988 Score: 762
Period size: 204 Copynumber: 2.0 Consensus size: 204
1169571 TAAGGCTTTG
*
1169581 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACGTCATGCACTGTAGGACTTACAGACGACC
1 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGACGACC
*
1169646 CTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACT
66 CTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTATAGGACT
*
1169711 TACAGATTACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGC
131 TACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGC
*
1169776 ACTTTAGGA
196 ACTGTAGGA
* *
1169785 AAAACATCAAAAAGCTGCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACC
1 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGACGACC
1169850 CTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTATAGGACT
66 CTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTATAGGACT
1169915 TACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGC
131 TACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGC
1169980 ACTGTAGGA
196 ACTGTAGGA
1169989 CTTACAGATG
Statistics
Matches: 198, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
204 198 1.00
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.23
Consensus pattern (204 bp):
AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGACGACC
CTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTATAGGACT
TACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGC
ACTGTAGGA
Found at i:1169833 original size:280 final size:280
Alignment explanation
Indices: 1169505--1170064 Score: 1057
Period size: 280 Copynumber: 2.0 Consensus size: 280
1169495 TAAGGCTTTG
1169505 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACC
1 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACC
* *
1169570 CTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACGTCATGCACTGTAGGACT
66 CTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTATAGGACT
1169635 TACAGACGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGC
131 TACAGACGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGC
*
1169700 ACTGTAGGACTTACAGATTACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
196 ACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
* *
1169765 AAACATCATGCACTTTAGGA
261 AAACATCATGAACTGTAGGA
*
1169785 AAAACATCAAAAAGCTGCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACC
1 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACC
1169850 CTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTATAGGACT
66 CTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTATAGGACT
*
1169915 TACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGC
131 TACAGACGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGC
1169980 ACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
196 ACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
1170045 AAACATCATGAACTGTAGGA
261 AAACATCATGAACTGTAGGA
1170065 CTTACAGATG
Statistics
Matches: 273, Mismatches: 7, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
280 273 1.00
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.23
Consensus pattern (280 bp):
AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACC
CTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTATAGGACT
TACAGACGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGC
ACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
AAACATCATGAACTGTAGGA
Found at i:1169874 original size:76 final size:76
Alignment explanation
Indices: 1169785--1172804 Score: 5548
Period size: 76 Copynumber: 39.8 Consensus size: 76
1169775 CACTTTAGGA
*
1169785 AAAACATCAAAAAGCTGCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACC
1 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACC
1169850 CTAAGGCTTTG
66 CTAAGGCTTTG
*
1169861 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTATAGGACTTACAGATGACC
1 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACC
1169926 CTAAGGCTTTG
66 CTAAGGCTTTG
1169937 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACC
1 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACC
1170002 CTAAGGCTTTG
66 CTAAGGCTTTG
*
1170013 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGAACTGTAGGACTTACAGATGACC
1 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACC
1170078 CTAAGGCTTTG
66 CTAAGGCTTTG
*
1170089 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGGCC
1 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACC
1170154 CTAAGGCTTTG
66 CTAAGGCTTTG
1170165 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACC
1 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACC
1170230 CTAAGGCTTTG
66 CTAAGGCTTTG
*
1170241 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCCCTGTAGGACTTACAGATGACC
1 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACC
1170306 CTAAGGCTTTG
66 CTAAGGCTTTG
* * *
1170317 AAAACATCAAAAAGCTCCTGAAGGTTTTTTGGAAACGTCATGCACTGTAGGACTTACAGATGACC
1 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACC
1170382 CTAAGGCTTTG
66 CTAAGGCTTTG
*
1170393 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGACTTACAGATGACC
1 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACC
1170458 CTAAGGCTTTG
66 CTAAGGCTTTG
* * *
1170469 AAAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAACATCATGCACTGTAGTACTTACAGATGGCC
1 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACC
1170534 CTAAGGCTTTG
66 CTAAGGCTTTG
* *
1170545 AAAACATTAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACT
1 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACC
1170610 CTAAGGCTTTG
66 CTAAGGCTTTG
1170621 AAAACATC-AAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACC
1 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACC
1170685 CTAAGGCTTTG
66 CTAAGGCTTTG
*
1170696 AAAACATC-AAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCCCTGTAGGACTTACAGATGACC
1 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACC
1170760 CTAAGGCTTTG
66 CTAAGGCTTTG
* *
1170771 AAAACATCAAAAAGCTCCTGAAGGCTTTTTGGAAACGTCATGCACTGTAGGACTTACAGATGACC
1 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACC
1170836 CTAAGGCTTTG
66 CTAAGGCTTTG
* *
1170847 AAAACATCAAAAAGCTCCCGAAGGGTTTTTGAAAACATCATGCACTGTAGGACTTACAGATGACC
1 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACC
1170912 CTAAGGCTTTG
66 CTAAGGCTTTG
* * *
1170923 AAAACATAAAAAAGCTCCCGAAGGCTTTTTTGAAACATCATGCACTGTAGGACTTACAGATGACA
1 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACC
1170988 CTAAGGCTTTG
66 CTAAGGCTTTG
* *
1170999 AAAACATCAAAAAGCTCCCGAAAGCTTTTTGAAAACATCATGCACTGTAGGACTTACAGATGACC
1 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACC
1171064 CTAAGGCTTTG
66 CTAAGGCTTTG
*
1171075 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGGCC
1 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACC
1171140 CTAAGGCTTTG
66 CTAAGGCTTTG
1171151 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACC
1 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACC
1171216 CTAAGGCTTTG
66 CTAAGGCTTTG
*
1171227 -AAA-A-CAAAAAGCTCCCGAAGGCTTTTTGGAAACGTCATGCACTGTAGGACTTACAGATGACC
1 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACC
1171289 CTAAGGCTTTG
66 CTAAGGCTTTG
* *
1171300 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGTACTGTAGGACTTACAGATTACC
1 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACC
1171365 CTAAGGCTTTG
66 CTAAGGCTTTG
* *
1171376 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATCCACTTTAGGACTTACAGATGACC
1 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACC
1171441 CTAAGGCTTTG
66 CTAAGGCTTTG
*
1171452 AAAACATCAAAAAGCTGCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACC
1 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACC
1171517 CTAAGGCTTTG
66 CTAAGGCTTTG
1171528 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACT-TAGGACTTACAGATGACC
1 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACC
1171592 CTAAGGCTTTG
66 CTAAGGCTTTG
1171603 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACC
1 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACC
1171668 CTAAGGCTTTG
66 CTAAGGCTTTG
*
1171679 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGAACTGTAGGACTTACAGATGACC
1 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACC
1171744 CTAAGGCTTTG
66 CTAAGGCTTTG
*
1171755 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGGCC
1 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACC
1171820 CTAAGGCTTTG
66 CTAAGGCTTTG
1171831 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACC
1 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACC
1171896 CTAAGGCTTTG
66 CTAAGGCTTTG
*
1171907 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCCCTGTAGGACTTACAGATGACC
1 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACC
1171972 CTAAGGCTTTG
66 CTAAGGCTTTG
* *
1171983 AAAACATCAAAAAGCTCCTGAAGGCTTTTTGGAAACGTCATGCACTGTAGGACTTACAGATGACC
1 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACC
1172048 CTAAGGCTTTG
66 CTAAGGCTTTG
*
1172059 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGACTTACAGATGACC
1 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACC
1172124 CTAAGGCTTTG
66 CTAAGGCTTTG
* * *
1172135 AAAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAACATCATGCACTGTAGTACTTACAGATGGCC
1 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACC
1172200 CTAAGGCTTTG
66 CTAAGGCTTTG
* *
1172211 AAAACATTAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCCCTGTAGGACTTACAGATGACC
1 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACC
1172276 CTAAGGCTTTG
66 CTAAGGCTTTG
1172287 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACC
1 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACC
1172352 CTAAGGCTTTG
66 CTAAGGCTTTG
*
1172363 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCCCTGTAGGACTTACAGATGACC
1 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACC
1172428 CTAAGGCTTTG
66 CTAAGGCTTTG
* *
1172439 AAAACATCAAAAAGCTCCTGAAGGCTTTTTGGAAACGTCATGCACTGTAGGACTTACAGATGACC
1 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACC
1172504 CTAAGGCTTTG
66 CTAAGGCTTTG
*
1172515 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGACTTACAGATGACC
1 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACC
1172580 CTAAGGCTTTG
66 CTAAGGCTTTG
* * *
1172591 AAAACATCAAAAAGCTCCCGAAGGCTTTTTTGAAACATCATGAACTGTAGGACTTACAGATGACA
1 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACC
1172656 CTAAGGCTTTG
66 CTAAGGCTTTG
*
1172667 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGACTTACAGATGACC
1 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACC
1172732 CTAAGGCTTTG
66 CTAAGGCTTTG
1172743 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATG
1 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATG
1172805 TGGGAAATAG
Statistics
Matches: 2840, Mismatches: 99, Indels: 10
0.96 0.03 0.00
Matches are distributed among these distances:
73 68 0.02
74 4 0.00
75 227 0.08
76 2541 0.89
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (76 bp):
AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACC
CTAAGGCTTTG
Found at i:1169885 original size:128 final size:128
Alignment explanation
Indices: 1169657--1169912 Score: 485
Period size: 128 Copynumber: 2.0 Consensus size: 128
1169647 TAAGGCTTTG
*
1169657 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATTACC
1 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACC
*
1169722 CTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTTTAGGA
66 CTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTATAGGA
*
1169785 AAAACATCAAAAAGCTGCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACC
1 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACC
1169850 CTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTATAGGA
66 CTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTATAGGA
1169913 CTTACAGATG
Statistics
Matches: 125, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
128 125 1.00
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.23
Consensus pattern (128 bp):
AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACC
CTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTATAGGA
Found at i:1170082 original size:356 final size:356
Alignment explanation
Indices: 1169429--1170140 Score: 1345
Period size: 356 Copynumber: 2.0 Consensus size: 356
1169419 TAAGGCTTTG
*
1169429 AAAACATCAAAAAGCTCCTGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGGCC
1 AAAACATCAAAAAGCTCCTGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACC
*
1169494 CTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACT
66 CTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTATAGGACT
*
1169559 TACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACGTCATGC
131 TACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGC
1169624 ACTGTAGGACTTACAGACGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
196 ACTGTAGGACTTACAGACGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
* *
1169689 AAACATCATGCACTGTAGGACTTACAGATTACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
261 AAACATCATGAACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
*
1169754 AGGCTTTTTGGAAACATCATGCACTTTAGGA
326 AGGCTTTTTGGAAACATCATGCACTGTAGGA
1169785 AAAACATCAAAAAGCTGCC-GAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGAC
1 AAAACATCAAAAAGCT-CCTGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGAC
1169849 CCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTATAGGAC
65 CCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTATAGGAC
1169914 TTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATG
130 TTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATG
*
1169979 CACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTG
195 CACTGTAGGACTTACAGACGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTG
1170044 GAAACATCATGAACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCG
260 GAAACATCATGAACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCG
1170109 AAGGCTTTTTGGAAACATCATGCACTGTAGGA
325 AAGGCTTTTTGGAAACATCATGCACTGTAGGA
1170141 CTTACAGATG
Statistics
Matches: 348, Mismatches: 7, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
356 346 0.99
357 2 0.01
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.24
Consensus pattern (356 bp):
AAAACATCAAAAAGCTCCTGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACC
CTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTATAGGACT
TACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGC
ACTGTAGGACTTACAGACGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
AAACATCATGAACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
AGGCTTTTTGGAAACATCATGCACTGTAGGA
Found at i:1173497 original size:22 final size:22
Alignment explanation
Indices: 1173472--1173548 Score: 100
Period size: 22 Copynumber: 3.5 Consensus size: 22
1173462 AATAAAGCTT
*
1173472 TCATCTTTGAAAAGGGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
* *
1173494 TCATATTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
1173516 TCATCTTTGAAAAGAGAATATA
1 TCATCTTTGAAAAGAGAATCTA
* *
1173538 TTATCTATGAA
1 TCATCTTTGAA
1173549 GAGTGTAGAT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.34
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:1181005 original size:8 final size:8
Alignment explanation
Indices: 1180992--1181032 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 8
1180982 AATGTAATGT
1180992 AAATGCAA
1 AAATGCAA
*
1181000 AAATGCAT
1 AAATGCAA
1181008 AAATGTCAA
1 AAATG-CAA
1181017 AAAT--AA
1 AAATGCAA
1181023 AAATGCAA
1 AAATGCAA
1181031 AA
1 AA
1181033 TGTGTGATTC
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
6 6 0.21
8 16 0.57
9 6 0.21
ACGTcount: A:0.63, C:0.10, G:0.10, T:0.17
Consensus pattern (8 bp):
AAATGCAA
Found at i:1183984 original size:29 final size:29
Alignment explanation
Indices: 1183952--1184008 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
1183942 ATTTCAAAAT
1183952 TATAATTATGAAA-AAAATATTAATTTATA
1 TATAATTAT-AAATAAAATATTAATTTATA
* *
1183981 TATATTTATAAATAAAATATTTATTTAT
1 TATAATTATAAATAAAATATTAATTTAT
1184009 TTAGAAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 3 0.12
29 22 0.88
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (29 bp):
TATAATTATAAATAAAATATTAATTTATA
Found at i:1184187 original size:116 final size:113
Alignment explanation
Indices: 1183973--1184194 Score: 252
Period size: 116 Copynumber: 1.9 Consensus size: 113
1183963 AAAAAATATT
* * * *
1183973 AATTTATATATATTTATAAATAAAATATTTATTTATTTAGAAATATCAGAAAATGACTTCTAGGT
1 AATTAATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAATGACATCCAGGT
* *
1184038 GCCTTAAGATAACTCTTTTCTTCGATATTAAAAAATAAATAATTAAAAC
66 GCCTTAAGATAACACTTTTCTTCAATATT-AAAAATAAATAATTAAAAC
**
1184087 AATTAATATATAATTTATAAAATAGGATATTTATTTATTTAAAAATATCAGAAAATGGACATCCA
1 AATTAATATAT-ATTTAT-AAATAAAATATTTATTTATTTAAAAATATCAGAAAAT-GACATCCA
* *** *
1184152 GTTTTTTTAAGACT-GCAC-TTTCTT-AATATTGAAAAATAAATAA
63 GGTGCCTTAAGA-TAACACTTTTCTTCAATATT-AAAAATAAATAA
1184195 ATATTAAAAC
Statistics
Matches: 90, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
114 10 0.11
115 23 0.26
116 40 0.44
117 16 0.18
118 1 0.01
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (113 bp):
AATTAATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAATGACATCCAGGT
GCCTTAAGATAACACTTTTCTTCAATATTAAAAATAAATAATTAAAAC
Found at i:1184296 original size:22 final size:18
Alignment explanation
Indices: 1184251--1184286 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
1184241 TTAATAAATA
1184251 AAATAAATATTATTTATT
1 AAATAAATATTATTTATT
*
1184269 ATATAAATATATATTTAT
1 AAATAAATAT-TATTTAT
1184287 GGCTAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
AAATAAATATTATTTATT
Found at i:1185795 original size:3 final size:3
Alignment explanation
Indices: 1185789--1185849 Score: 65
Period size: 3 Copynumber: 21.0 Consensus size: 3
1185779 AATAATTATT
*
1185789 TAA TAA TAA T-A TAA T-A TAA T-A TATA TAA TAT TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
**
1185832 TAA TAA TTT TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA
1185850 AAAAATGAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
2 6 0.12
3 39 0.81
4 3 0.06
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:1192819 original size:91 final size:91
Alignment explanation
Indices: 1192664--1192875 Score: 289
Period size: 91 Copynumber: 2.3 Consensus size: 91
1192654 CCTCACAAAT
* * *
1192664 TTGTGACAGGTCCACATGTTCCGTCACAAAATTCAGAGTTTCTTAATTATCCGCTCATTACCTCC
1 TTGTGACGGGTCCACATGTTCCGCCACAAAATTCAGAGTTTCTTAATTACCCGCTCATTACCTCC
*
1192729 AATTTCCCTCCATTGAAACATAAAAG
66 AATTTCACTCCATTGAAACATAAAAG
* * * * * *
1192755 TTGTGACGGGTTCATATGTTTCGCCACAAAATTTAGAGTTTTTTAATTACCCGCTCATTTCCTCC
1 TTGTGACGGGTCCACATGTTCCGCCACAAAATTCAGAGTTTCTTAATTACCCGCTCATTACCTCC
* *
1192820 AATTTCATTCCATTGAAACATAAAAT
66 AATTTCACTCCATTGAAACATAAAAG
* * *
1192846 TTGTGATGGGTCCACTTGTTCCGTCACAAA
1 TTGTGACGGGTCCACATGTTCCGCCACAAA
1192876 TTTGTGATGG
Statistics
Matches: 103, Mismatches: 18, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
91 103 1.00
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.35
Consensus pattern (91 bp):
TTGTGACGGGTCCACATGTTCCGCCACAAAATTCAGAGTTTCTTAATTACCCGCTCATTACCTCC
AATTTCACTCCATTGAAACATAAAAG
Found at i:1192940 original size:31 final size:31
Alignment explanation
Indices: 1192842--1192936 Score: 156
Period size: 31 Copynumber: 3.1 Consensus size: 31
1192832 TTGAAACATA
1192842 AAATTTGTGATGGGTCCACTTGTTCCGTCAC
1 AAATTTGTGATGGGTCCACTTGTTCCGTCAC
1192873 AAATTTGTGATGGGTCCACTTGTTCCGTCAC
1 AAATTTGTGATGGGTCCACTTGTTCCGTCAC
* * *
1192904 AAATTTGTGACGGGTCCACATATTCC-TCAC
1 AAATTTGTGATGGGTCCACTTGTTCCGTCAC
1192934 AAA
1 AAA
1192937 ATTTAGAGTT
Statistics
Matches: 61, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
30 7 0.11
31 54 0.89
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (31 bp):
AAATTTGTGATGGGTCCACTTGTTCCGTCAC
Found at i:1193059 original size:92 final size:90
Alignment explanation
Indices: 1192904--1193087 Score: 278
Period size: 92 Copynumber: 2.0 Consensus size: 90
1192894 GTTCCGTCAC
* *
1192904 AAATTTGTGACGGGTCCACATATTCCTCACAAAATTTAGAGTTTTTTAATTACCTGCTCATTTCC
1 AAATTTGTGACGGATCCACATATTCCTCACAAAATTTAGAGTTTTTTAATTACCCGCTCATTTCC
*
1192969 TCCAATTTTCCTCCATTGAAACATA
66 TCCAATTTCCCTCCATTGAAACATA
* * *
1192994 AAATTTGTGACGGATTCACATGTTCCGTCACAAAATTTAGAGGTTTTTTACTTACCCGCTCATTT
1 AAATTTGTGACGGATCCACATATTCC-TCACAAAATTTAGA-GTTTTTTAATTACCCGCTCATTT
* *
1193059 CCTTCAATTTCCCTCTATTGAAACATA
64 CCTCCAATTTCCCTCCATTGAAACATA
1193086 AA
1 AA
1193088 TTTCAAACAT
Statistics
Matches: 84, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
90 23 0.27
91 14 0.17
92 47 0.56
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.38
Consensus pattern (90 bp):
AAATTTGTGACGGATCCACATATTCCTCACAAAATTTAGAGTTTTTTAATTACCCGCTCATTTCC
TCCAATTTCCCTCCATTGAAACATA
Found at i:1194290 original size:33 final size:33
Alignment explanation
Indices: 1194252--1194328 Score: 109
Period size: 33 Copynumber: 2.3 Consensus size: 33
1194242 TAACTAATTA
* *
1194252 AATAAAAATTTGGATTTAGAACATTATGGAGGG
1 AATAAAAATTTAGATTCAGAACATTATGGAGGG
* *
1194285 AATAAAAATTTAGATTCAGAATATTTTGGAGGG
1 AATAAAAATTTAGATTCAGAACATTATGGAGGG
*
1194318 AATGAAAATTT
1 AATAAAAATTT
1194329 TTCGGATATA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.44, C:0.03, G:0.21, T:0.32
Consensus pattern (33 bp):
AATAAAAATTTAGATTCAGAACATTATGGAGGG
Found at i:1194433 original size:128 final size:129
Alignment explanation
Indices: 1194298--1194562 Score: 442
Period size: 128 Copynumber: 2.1 Consensus size: 129
1194288 AAAAATTTAG
**
1194298 ATTCAGAATATTTTGGAGGGAATGAAAATTTTTCGGATATAATCCCGATAAATTTTCCCTCATTT
1 ATTCAGAATATTTTGGAGGGAATGAAAATTTTAAGGATATAATCCCGATAAATTTTCCCTCATTT
* *
1194363 TTTTT-AAAAAAAATTAAGATTTAAATTTCCGATGGAAAATATGTAATCCATTGGAAATTAAAA
66 TTTTTAAAAAAAAATTAAGATTTAAATTTCCGATGAAAAACATGTAATCCATTGGAAATTAAAA
*
1194426 ATTCAGAATATTTTGGAGGGAATGAAAATTTTAAGGATATAATCCTGATAAATTTTCCCTCATTT
1 ATTCAGAATATTTTGGAGGGAATGAAAATTTTAAGGATATAATCCCGATAAATTTTCCCTCATTT
* * *
1194491 TTTTTAAAAAAAAAATTAAGATTTAAATTTTCGATTAAAAACATGTAATTCATTGGAAATTAAAA
66 TTTTT-AAAAAAAAATTAAGATTTAAATTTCCGATGAAAAACATGTAATCCATTGGAAATTAAAA
1194556 ATTCAGA
1 ATTCAGA
1194563 TTTTATTTTT
Statistics
Matches: 127, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
128 67 0.53
130 60 0.47
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.37
Consensus pattern (129 bp):
ATTCAGAATATTTTGGAGGGAATGAAAATTTTAAGGATATAATCCCGATAAATTTTCCCTCATTT
TTTTTAAAAAAAAATTAAGATTTAAATTTCCGATGAAAAACATGTAATCCATTGGAAATTAAAA
Found at i:1195694 original size:22 final size:21
Alignment explanation
Indices: 1195666--1195711 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
1195656 GTTAAATTAA
*
1195666 AAAAAAAATATTTTGTGGTGTC
1 AAAAAAAATATTTTG-GATGTC
*
1195688 AAAAAAATTATTTTGGATGTC
1 AAAAAAAATATTTTGGATGTC
1195709 AAA
1 AAA
1195712 TTTAAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.46, C:0.04, G:0.15, T:0.35
Consensus pattern (21 bp):
AAAAAAAATATTTTGGATGTC
Found at i:1203550 original size:14 final size:14
Alignment explanation
Indices: 1203531--1203560 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1203521 GATAAAATCT
1203531 TTAAGTAATATATA
1 TTAAGTAATATATA
*
1203545 TTAAGTAATATTTA
1 TTAAGTAATATATA
1203559 TT
1 TT
1203561 TAATAAACAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
TTAAGTAATATATA
Found at i:1204636 original size:7 final size:7
Alignment explanation
Indices: 1204624--1204649 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
1204614 GTGAACGACA
1204624 GTCAACG
1 GTCAACG
1204631 GTCAACG
1 GTCAACG
1204638 GTCAACG
1 GTCAACG
1204645 GTCAA
1 GTCAA
1204650 AGGGTCGGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.27, G:0.27, T:0.15
Consensus pattern (7 bp):
GTCAACG
Found at i:1206124 original size:30 final size:30
Alignment explanation
Indices: 1206001--1206126 Score: 93
Period size: 30 Copynumber: 4.4 Consensus size: 30
1205991 CAAACAGGAT
*
1206001 TTAAA-GACTAAAATGACAAAAATAGAAAC
1 TTAAAGGACTAAAATAACAAAAATAGAAAC
* ** *
1206030 -GAAAGGACT-AAAT-AGTACAATAG-AAC
1 TTAAAGGACTAAAATAACAAAAATAGAAAC
* * * * * * *
1206056 TTAAGGGTCT-AAATAGCAAATATATACAT
1 TTAAAGGACTAAAATAACAAAAATAGAAAC
1206085 TTAAAGGACTAAAATAACAAAAATAGAAAC
1 TTAAAGGACTAAAATAACAAAAATAGAAAC
*
1206115 TTAAGGGACTAA
1 TTAAAGGACTAA
1206127 TAGTAGAAAT
Statistics
Matches: 69, Mismatches: 23, Indels: 9
0.68 0.23 0.09
Matches are distributed among these distances:
26 3 0.04
27 17 0.25
28 11 0.16
29 13 0.19
30 25 0.36
ACGTcount: A:0.55, C:0.10, G:0.14, T:0.21
Consensus pattern (30 bp):
TTAAAGGACTAAAATAACAAAAATAGAAAC
Found at i:1207175 original size:9 final size:9
Alignment explanation
Indices: 1207161--1207201 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
1207151 TCTTTCCTTC
1207161 TTTTTGTTT
1 TTTTTGTTT
1207170 TTTTTG-TT
1 TTTTTGTTT
1207178 TTTTTGTTT
1 TTTTTGTTT
*
1207187 TTTTTCTTT
1 TTTTTGTTT
1207196 TATTTT
1 T-TTTT
1207202 CGAACCAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
8 8 0.28
9 17 0.59
10 4 0.14
ACGTcount: A:0.02, C:0.02, G:0.07, T:0.88
Consensus pattern (9 bp):
TTTTTGTTT
Done.