Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_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: 16962412
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 73
Found at i:1265652 original size:20 final size:20
Alignment explanation
Indices: 1265615--1265657 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1265605 ATTTCACCAC
* *
1265615 ATGCAACTATATGTTCCTAA
1 ATGCAACTAGATGATCCTAA
*
1265635 ATGCATCTAGATGATCCTAA
1 ATGCAACTAGATGATCCTAA
1265655 ATG
1 ATG
1265658 AGCTCTTAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.33
Consensus pattern (20 bp):
ATGCAACTAGATGATCCTAA
Found at i:1266256 original size:10 final size:10
Alignment explanation
Indices: 1266241--1266265 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
1266231 AACTTATTTA
1266241 TTTTTTCTTT
1 TTTTTTCTTT
1266251 TTTTTTCTTT
1 TTTTTTCTTT
1266261 TTTTT
1 TTTTT
1266266 AAGTGTGGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:1270849 original size:20 final size:20
Alignment explanation
Indices: 1270820--1270862 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1270810 ATTTCACCAT
*
1270820 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
* *
1270840 ATGCATCTATATTATCCTAA
1 ATGCAACTATATGATCCTAA
1270860 ATG
1 ATG
1270863 AGCTCTTAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:1271778 original size:30 final size:30
Alignment explanation
Indices: 1271721--1271781 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
1271711 ATTGTTTTCG
* ** *
1271721 TGTTCATTTATTTATTTTTGAATGTGTTCA
1 TGTTCATTTATATATTTACGAACGTGTTCA
*
1271751 TGTTCATTTATATGTTTACGAACGTGTTCA
1 TGTTCATTTATATATTTACGAACGTGTTCA
1271781 T
1 T
1271782 TTAACGTTCA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.21, C:0.10, G:0.15, T:0.54
Consensus pattern (30 bp):
TGTTCATTTATATATTTACGAACGTGTTCA
Found at i:1274118 original size:36 final size:38
Alignment explanation
Indices: 1274073--1274161 Score: 114
Period size: 36 Copynumber: 2.4 Consensus size: 38
1274063 TTTGTATAAT
1274073 ATTACAAATTATAAAATATTTATAT-ATTTTTTTAAAAA
1 ATTA-AAATTATAAAATATTTATATAATTTTTTTAAAAA
*
1274111 ATT-AAATTCAT--AATATTTATATAATTTTTTTACAAA
1 ATTAAAATT-ATAAAATATTTATATAATTTTTTTAAAAA
*
1274147 ATTAAAAATATAAAA
1 ATTAAAATTATAAAA
1274162 AAGGTTTAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
35 11 0.25
36 22 0.50
37 6 0.14
38 5 0.11
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (38 bp):
ATTAAAATTATAAAATATTTATATAATTTTTTTAAAAA
Found at i:1290937 original size:19 final size:20
Alignment explanation
Indices: 1290901--1290944 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
1290891 TTATCCGGAA
1290901 AAAAATCCGGTCTGGGGTTT
1 AAAAATCCGGTCTGGGGTTT
1290921 AAAAATCCGGTCT-GGGTTT
1 AAAAATCCGGTCTGGGGTTT
1290940 AAAAA
1 AAAAA
1290945 ATTGGATGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (20 bp):
AAAAATCCGGTCTGGGGTTT
Found at i:1290999 original size:17 final size:17
Alignment explanation
Indices: 1290973--1291005 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1290963 TTACCGGATT
1290973 AAAAACCGGTTTTTTTA
1 AAAAACCGGTTTTTTTA
*
1290990 AAAAATCGGTTTTTTT
1 AAAAACCGGTTTTTTT
1291006 CAAACCGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.45
Consensus pattern (17 bp):
AAAAACCGGTTTTTTTA
Found at i:1296414 original size:25 final size:25
Alignment explanation
Indices: 1296386--1296433 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
1296376 ATTGAGTTAG
*
1296386 ATAAGATATGAATAC-AAATTTTAAC
1 ATAAAATAT-AATACTAAATTTTAAC
*
1296411 ATAAAATATCATACTAAATTTTA
1 ATAAAATATAATACTAAATTTTA
1296434 GGTCGGATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.52, C:0.08, G:0.04, T:0.35
Consensus pattern (25 bp):
ATAAAATATAATACTAAATTTTAAC
Found at i:1299179 original size:22 final size:22
Alignment explanation
Indices: 1299162--1299227 Score: 123
Period size: 22 Copynumber: 3.0 Consensus size: 22
1299152 CTCGTATAAA
1299162 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
1299184 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
*
1299206 TGCACCGTAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
1299228 GATGTCCATA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.26, C:0.27, G:0.27, T:0.20
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:1300904 original size:21 final size:21
Alignment explanation
Indices: 1300880--1300924 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1300870 TCTTGTTCGT
* *
1300880 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
1300901 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
1300922 TTG
1 TTG
1300925 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:1301824 original size:17 final size:17
Alignment explanation
Indices: 1301785--1301827 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
1301775 ATAGCATCAG
*
1301785 TTATCACTCAAAATCCT
1 TTATCAATCAAAATCCT
* *
1301802 TAATCAATCAAAATTCT
1 TTATCAATCAAAATCCT
1301819 TTATCAATC
1 TTATCAATC
1301828 TTTAATTACC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.40, C:0.23, G:0.00, T:0.37
Consensus pattern (17 bp):
TTATCAATCAAAATCCT
Found at i:1304024 original size:22 final size:22
Alignment explanation
Indices: 1303983--1304049 Score: 116
Period size: 22 Copynumber: 3.0 Consensus size: 22
1303973 CTCGTATAAA
1303983 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTG-CCCGTAGAAT
1304006 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
*
1304028 TGCACCGTAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
1304050 GATGTCCATA
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
22 31 0.72
23 12 0.28
ACGTcount: A:0.25, C:0.28, G:0.27, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:1305681 original size:20 final size:20
Alignment explanation
Indices: 1305653--1305693 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
1305643 TCTTGTTCGT
* *
1305653 TGAAGGGGTATCGGTTCCCC
1 TGAAGGGGTACCGATTCCCC
*
1305673 TGAATGGGTACCGATTCCCC
1 TGAAGGGGTACCGATTCCCC
1305693 T
1 T
1305694 TGACCAGATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.17, C:0.27, G:0.29, T:0.27
Consensus pattern (20 bp):
TGAAGGGGTACCGATTCCCC
Found at i:1308803 original size:22 final size:22
Alignment explanation
Indices: 1308762--1308828 Score: 116
Period size: 22 Copynumber: 3.0 Consensus size: 22
1308752 CTCGTATAAA
1308762 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTG-CCCGTAGAAT
1308785 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
*
1308807 TGCACCGTAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
1308829 GATGTCCATA
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
22 31 0.72
23 12 0.28
ACGTcount: A:0.25, C:0.28, G:0.27, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:1310477 original size:21 final size:21
Alignment explanation
Indices: 1310453--1310498 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
1310443 TTCTGTTCGT
* *
1310453 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
1310474 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
1310495 TTGA
1 TTGA
1310499 CCAGAAATCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.17, C:0.24, G:0.28, T:0.30
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:1311263 original size:31 final size:31
Alignment explanation
Indices: 1311228--1311292 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 31
1311218 AATCTCTTAC
1311228 TATTAAAAGTTAT-AAAATAGTCCCTCAACTA
1 TATTAAAAGTTATAAAAATAGTCCCTC-ACTA
1311259 TATTAAAAGTTATAAAAATAGTCCCTCACTA
1 TATTAAAAGTTATAAAAATAGTCCCTCACTA
1311290 TAT
1 TAT
1311293 GGTGATACAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 20 0.61
32 13 0.39
ACGTcount: A:0.45, C:0.15, G:0.06, T:0.34
Consensus pattern (31 bp):
TATTAAAAGTTATAAAAATAGTCCCTCACTA
Found at i:1319056 original size:131 final size:130
Alignment explanation
Indices: 1318908--1319276 Score: 452
Period size: 131 Copynumber: 2.8 Consensus size: 130
1318898 TCAATATTGA
* * *
1318908 GAATAGTAATATCTTTTCATTTCGGTTGGAGTAATAATTATTTGCTTTAAGGCATGAGAGGTTAT
1 GAATAGTGATATCTTTTCATTTCGATTGGAGTAATAATTA-TTGCTTTAAGGTATGAGAGGTTAT
* * * *
1318973 TTATTCTCGATTGAAAATAATTCGATATTACCGTTTTCTCTCGAATTAATATT-AATTTTTAAGA
65 TTATTCTCGATTGGAAATAATTAGATATTATCGTTTTCTCTCGAATCAATATTGAA-TTTTAAGA
1319037 TG
129 TG
* * * * * * *
1319039 GAATAGTGATATGTTTTCATTTCGATTGGGGTAATAAATGAATGCTTTAAGATATGAGATGTTTT
1 GAATAGTGATATCTTTTCATTTCGATTGGAGTAAT-AATTATTGCTTTAAGGTATGAGAGGTTAT
* * * * *
1319104 TTATTCTCGAATGGAAATCATTAGATATTATCATTTTCACTCGAATCGATATTGAATTTTAAGAT
65 TTATTCTCGATTGGAAATAATTAGATATTATCGTTTTCTCTCGAATCAATATTGAATTTTAAGAT
1319169 G
130 G
* * * ** * *
1319170 GAATAATGATATCTCTTAATTTCGATTGGAGTAATAAATGCTTGTTTTAAGGTATGAGAGGTCAT
1 GAATAGTGATATCTTTTCATTTCGATTGGAGTAAT-AATTATTGCTTTAAGGTATGAGAGGTTAT
*
1319235 TTATTCTCGATTGGAAATAATTAGATATCATCGTTTTCTCTC
65 TTATTCTCGATTGGAAATAATTAGATATTATCGTTTTCTCTC
1319277 TTAAAATTAT
Statistics
Matches: 200, Mismatches: 36, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
131 194 0.97
132 6 0.03
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.42
Consensus pattern (130 bp):
GAATAGTGATATCTTTTCATTTCGATTGGAGTAATAATTATTGCTTTAAGGTATGAGAGGTTATT
TATTCTCGATTGGAAATAATTAGATATTATCGTTTTCTCTCGAATCAATATTGAATTTTAAGATG
Found at i:1326298 original size:2 final size:2
Alignment explanation
Indices: 1326291--1326376 Score: 142
Period size: 2 Copynumber: 44.5 Consensus size: 2
1326281 TTTTCTCCTG
1326291 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
1326332 TA TA TA TA TA TA -A TA T- TA TA TA TA TA TA TA TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1326372 TA TA T
1 TA TA T
1326377 CCTCTCGTTT
Statistics
Matches: 79, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
1 3 0.04
2 76 0.96
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1328380 original size:18 final size:19
Alignment explanation
Indices: 1328357--1328392 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
1328347 ATCCTCCACG
1328357 TGTTGTTAGGATG-TTAAA
1 TGTTGTTAGGATGATTAAA
1328375 TGTTGTTAGGATGATTAA
1 TGTTGTTAGGATGATTAA
1328393 TGGTTAGTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.44
Consensus pattern (19 bp):
TGTTGTTAGGATGATTAAA
Found at i:1333538 original size:18 final size:18
Alignment explanation
Indices: 1333501--1333536 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
1333491 ATCCTCCACG
*
1333501 TGTTGTTAGGCTGTTAAA
1 TGTTGTTAGGATGTTAAA
1333519 TGTTGTTAGGATGATTAA
1 TGTTGTTAGGATG-TTAA
1333537 TGGTTAGTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.25, C:0.03, G:0.28, T:0.44
Consensus pattern (18 bp):
TGTTGTTAGGATGTTAAA
Found at i:1343283 original size:64 final size:64
Alignment explanation
Indices: 1343182--1343309 Score: 256
Period size: 64 Copynumber: 2.0 Consensus size: 64
1343172 GAGGCCTCAA
1343182 TTTGATCTGATTCTTATAACTTACAAGGAGTTATTCCACAAGTTATACGATCGTCAAGTAGTCT
1 TTTGATCTGATTCTTATAACTTACAAGGAGTTATTCCACAAGTTATACGATCGTCAAGTAGTCT
1343246 TTTGATCTGATTCTTATAACTTACAAGGAGTTATTCCACAAGTTATACGATCGTCAAGTAGTCT
1 TTTGATCTGATTCTTATAACTTACAAGGAGTTATTCCACAAGTTATACGATCGTCAAGTAGTCT
1343310 CGCCTTATCA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.38
Consensus pattern (64 bp):
TTTGATCTGATTCTTATAACTTACAAGGAGTTATTCCACAAGTTATACGATCGTCAAGTAGTCT
Found at i:1348939 original size:15 final size:15
Alignment explanation
Indices: 1348931--1348972 Score: 75
Period size: 15 Copynumber: 2.7 Consensus size: 15
1348921 AAAAAAAATG
1348931 AAATGAAAAAATGAAA
1 AAATGAAAAAA-GAAA
1348947 AAATGAAAAAAGAAA
1 AAATGAAAAAAGAAA
1348962 AAATGAAAAAA
1 AAATGAAAAAA
1348973 AAGAAAGGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 15 0.58
16 11 0.42
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.10
Consensus pattern (15 bp):
AAATGAAAAAAGAAA
Found at i:1348944 original size:8 final size:8
Alignment explanation
Indices: 1348931--1348972 Score: 77
Period size: 8 Copynumber: 5.4 Consensus size: 8
1348921 AAAAAAAATG
1348931 AAATGAAA
1 AAATGAAA
1348939 AAATGAAA
1 AAATGAAA
1348947 AAATGAAA
1 AAATGAAA
1348955 AAA-GAAA
1 AAATGAAA
1348962 AAATGAAA
1 AAATGAAA
1348970 AAA
1 AAA
1348973 AAGAAAGGAC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 7 0.21
8 26 0.79
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.10
Consensus pattern (8 bp):
AAATGAAA
Found at i:1351163 original size:55 final size:55
Alignment explanation
Indices: 1350062--1351143 Score: 1459
Period size: 55 Copynumber: 19.7 Consensus size: 55
1350052 TTGAAGCATC
* *
1350062 AAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCGGACATGATTGTTG
1 AAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTG
*
1350117 AAGATTCG-TCGAGTCTTATACTCTCTAAAGGAATAGGGAGCAGACACGATTGTTG
1 AAGATT-GTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTG
* * * *
1350172 AAGATTATTCGAGTCTTATACTCTCTAAAGGAATAGAGAGCAGACACAATTGTTG
1 AAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTG
* * * *
1350227 AAGATTGTTTGAGTCTTATACTCTCTGAAGGAATAGGGAGCATACACGTTTGTTA
1 AAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTG
* * *
1350282 AAGATTGTTTGAGTCTTATACTCTCTGAAGGAATAGAGAGCTGACACGATTGTTG
1 AAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTG
* * *
1350337 AAGATTGTTTGAGTCTTATACTTTCTGAAGGAATAGGGAGCAGACACAATTGTTG
1 AAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTG
* *
1350392 AAGATTGCTCGAGTCTTATACTCTCTGAAGGAATAGGGAGAAGACACGATTGTTG
1 AAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTG
* * *
1350447 AAGATTGTTCGAGTCTTATACTCTCTGAAAGAATAGGAAACAGACACGATTGTTG
1 AAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTG
*
1350502 AAGATTATTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTG
1 AAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTG
1350557 AAGATAT-TTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTG
1 AAGAT-TGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTG
* * *
1350612 AAGATTG-ACTGAGTCTTATACTCTCTGAAGAAATAGGGAGCAAACACGATTGTTG
1 AAGATTGTTC-GAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTG
*
1350667 AAGATTGTTCGAGTCTTATACTCTCTGAAGGAATA---A-CAGACATGATTGTTG
1 AAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTG
* * * *
1350718 AAGATTGTTTGAGTCTTATACTCTCTGAAAGAATAGGGAGCAGACACAATTGATG
1 AAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTG
* * *
1350773 AAGATTGATCGAGTCTTATACTCTCTGAAGGAATAGGGACCGGACACGATTGTTG
1 AAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTG
* * *
1350828 AAGATTGTTTGAGTCTTATACTCTCTAAAAGAATAGGGAGCAGACACGATTGTTG
1 AAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTG
* * **
1350883 AAGATTGTTTGAGTCTTATACTATCTGAAGGAATAGGGAGTGGACACGATTGTTG
1 AAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTG
** * *
1350938 AAGATTGTTCGAGTCTTATACTCTCTGAAAAAATAGGGAGCAAACCCGATTGTTG
1 AAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTG
* * * * * **
1350993 AAGATTGTTCGAGTCTCATACTCTATGAAGGAATAGAGAGCAGACCCGTTTGCAG
1 AAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTG
* * * * *
1351048 AAGATTGTTCGAGT-TCTATACTCCCTAAAGAAAGAGGGAG-TGA-ACCTG-TT-TTCAG
1 AAGATTGTTCGAGTCT-TATACTCTCTGAAGGAATAGGGAGCAGACA-C-GATTGTT--G
* * * *
1351103 AAGATTGTTCAAGTCTTATACTCCCTGAAAGAATGGGGAGC
1 AAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGC
1351144 GGACCCGTTT
Statistics
Matches: 909, Mismatches: 101, Indels: 33
0.87 0.10 0.03
Matches are distributed among these distances:
51 46 0.05
52 1 0.00
54 9 0.01
55 849 0.93
56 4 0.00
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (55 bp):
AAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTG
Found at i:1351197 original size:54 final size:55
Alignment explanation
Indices: 1350937--1351200 Score: 204
Period size: 55 Copynumber: 4.8 Consensus size: 55
1350927 CACGATTGTT
* * * * **
1350937 GAAGATTGTTCGAGTCTTATACTCTCTGAAA-AAATAGGGAGCAAACCCGATTGTT--
1 GAAGATTGTTCAAGTC-TATACTCCCTTAAAGAAAGAGGGAGCGGACCCG-TT-TTCA
* * * * * * *
1350992 GAAGATTGTTCGAGTCTCATACT--CTATGAAGGAATAGAGAGCAGACCCGTTTGCA
1 GAAGATTGTTCAAGTCT-ATACTCCCT-TAAAGAAAGAGGGAGCGGACCCGTTTTCA
* * * *
1351047 GAAGATTGTTCGAGTTCTATACTCCC-TAAAGAAAGAGGGAGTGAACCTGTTTTCA
1 GAAGATTGTTCAAG-TCTATACTCCCTTAAAGAAAGAGGGAGCGGACCCGTTTTCA
* * *
1351102 GAAGATTGTTCAAGTCTTATACTCCCTGAAAGAATG-GGGAGCGGACCCGTTTTTA
1 GAAGATTGTTCAAGTC-TATACTCCCTTAAAGAAAGAGGGAGCGGACCCGTTTTCA
*
1351157 GAAGATT-TTCAAGTCT-CACTCACCTTAAAGAAAGAGGGAGCGGA
1 GAAGATTGTTCAAGTCTATACTC-CCTTAAAGAAAGAGGGAGCGGA
1351201 TTAATCTGGA
Statistics
Matches: 172, Mismatches: 25, Indels: 25
0.77 0.11 0.11
Matches are distributed among these distances:
52 4 0.02
53 14 0.08
54 24 0.14
55 119 0.69
56 10 0.06
57 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.27
Consensus pattern (55 bp):
GAAGATTGTTCAAGTCTATACTCCCTTAAAGAAAGAGGGAGCGGACCCGTTTTCA
Found at i:1356657 original size:2 final size:2
Alignment explanation
Indices: 1356644--1356692 Score: 82
Period size: 2 Copynumber: 25.0 Consensus size: 2
1356634 ACCACGTATT
*
1356644 TA TA TT TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1356686 TA -A TA TA
1 TA TA TA TA
1356693 AATAAAAATA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1361038 original size:30 final size:30
Alignment explanation
Indices: 1361004--1361061 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
1360994 TGAAATTTTG
**
1361004 TGAAAAATAATTTATGTAAAATAAATTACT
1 TGAAAAATAATTTACATAAAATAAATTACT
* *
1361034 TGAAAAGTGATTTACATAAAATAAATTA
1 TGAAAAATAATTTACATAAAATAAATTA
1361062 TATTTTTTCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.53, C:0.03, G:0.09, T:0.34
Consensus pattern (30 bp):
TGAAAAATAATTTACATAAAATAAATTACT
Found at i:1366008 original size:115 final size:116
Alignment explanation
Indices: 1365806--1366024 Score: 293
Period size: 115 Copynumber: 1.9 Consensus size: 116
1365796 TTCAGGGAAG
* * * * *
1365806 ATTGAATCAGGGTAGATTTGTTCTGCTGTCACTCAGGGAATATCAAATCTTGGAAGATAGGAATC
1 ATTGAATCAGGGCAGATTTGTTCTACTGTCACTCAAGGAATATCAAACCTTGGAAGATAGGAACC
* *
1365871 TGTTCCGCTTCTTCTGAAGGGAATATCAGAT-ATGGAAAGAGATGTGATCC
66 TATTCCGCTTCTTCTGAAGGGAATATCAAATCATGGAAAGAGATGTGATCC
* * *
1365921 ATTGAATTAGGGCAGATTTGTTCTATTTTCACTCAAGGAATATCAAACCTTGGAA-A-AGAGAGA
1 ATTGAATCAGGGCAGATTTGTTCTACTGTCACTCAAGGAATATCAAACCTTGGAAGATAG-GA-A
1365984 CCTATTCCGCTTAC-TCTGAAGGGAATATCAAATCATGGAAA
64 CCTATTCCGCTT-CTTCTGAAGGGAATATCAAATCATGGAAA
1366025 AAATAGACTT
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
113 2 0.02
114 3 0.03
115 77 0.86
116 8 0.09
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (116 bp):
ATTGAATCAGGGCAGATTTGTTCTACTGTCACTCAAGGAATATCAAACCTTGGAAGATAGGAACC
TATTCCGCTTCTTCTGAAGGGAATATCAAATCATGGAAAGAGATGTGATCC
Found at i:1366040 original size:48 final size:48
Alignment explanation
Indices: 1365957--1366114 Score: 208
Period size: 48 Copynumber: 3.3 Consensus size: 48
1365947 TTTCACTCAA
* *
1365957 GGAATATCAAACCTTGGAAAAGAGAGACCTATTCCGCTTACTCTGAAG
1 GGAATATCAAATCTTGGAAAAGATAGACCTATTCCGCTTACTCTGAAG
* * * *
1366005 GGAATATCAAATCATGGAAAAAATAGACTTGTTCCGCTTACTCTGAAG
1 GGAATATCAAATCTTGGAAAAGATAGACCTATTCCGCTTACTCTGAAG
* * * * *
1366053 GGAATATCAAATCTTTGAGAAGATAAACCTATTCCACTTACTGTGAAG
1 GGAATATCAAATCTTGGAAAAGATAGACCTATTCCGCTTACTCTGAAG
*
1366101 GGAATATCAGATCT
1 GGAATATCAAATCT
1366115 GGGGGAGTTG
Statistics
Matches: 94, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 94 1.00
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.27
Consensus pattern (48 bp):
GGAATATCAAATCTTGGAAAAGATAGACCTATTCCGCTTACTCTGAAG
Found at i:1366206 original size:48 final size:48
Alignment explanation
Indices: 1366142--1366370 Score: 316
Period size: 48 Copynumber: 4.8 Consensus size: 48
1366132 GAATTGGAGC
*
1366142 AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGAG
1 AGACTTGTTCCGCTTACTCTGAAGGGAATATCAAATCTTGGAGAAGAG
* *
1366190 AGACTAGTTCCGCTTACTCTGAAGGGAATATCAAATCTTTGAGAAGAG
1 AGACTTGTTCCGCTTACTCTGAAGGGAATATCAAATCTTGGAGAAGAG
* * * *
1366238 AGACCTATTCCGCTTACTCTGAAGGGAATATCAGAT-ATGGAGAAGAG
1 AGACTTGTTCCGCTTACTCTGAAGGGAATATCAAATCTTGGAGAAGAG
* * * *
1366285 AGACTTGTTCCACTTACTCTGAAGGGAATAACAAATCTTTGAGAAGAA
1 AGACTTGTTCCGCTTACTCTGAAGGGAATATCAAATCTTGGAGAAGAG
* * * *
1366333 AGACTTGTTTCGCTTACTTTGAAAGGAATATCACATCT
1 AGACTTGTTCCGCTTACTCTGAAGGGAATATCAAATCT
1366371 GGGGGAGTTG
Statistics
Matches: 157, Mismatches: 23, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
47 40 0.25
48 117 0.75
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (48 bp):
AGACTTGTTCCGCTTACTCTGAAGGGAATATCAAATCTTGGAGAAGAG
Found at i:1366210 original size:209 final size:210
Alignment explanation
Indices: 1365840--1366314 Score: 586
Period size: 209 Copynumber: 2.3 Consensus size: 210
1365830 GCTGTCACTC
* *
1365840 AGGGAATATCAAATCTTG-GAAGATAGGAATCTGTTCCGCTT-CTTCTGAAGGGAATATCAGATA
1 AGGGAATATCAAATCTTGAGAAGATA--AACCTGTTCCACTTAC-TCTGAAGGGAATATCAGATA
* * * *
1365903 TGGAAAGAGATGTGATCCATTGAATTAGGGCAGATTTGTTCTATTTTCACTCAAGGAATATCAAA
63 TGGAAAGAGATGTGATCCATTGAATTAGGGCAGACTTGTTCCACTTACACTCAAGGAATATCAAA
*
1365968 CCTTGGAAAAGAGAGACCTATTCCGCTTACTCTGAAGGGAATATCAAATCATGGAAAAAATAGAC
128 CCTTGGAAAAGAGAGACCTATTCCGCTTACTCTGAAGGGAATATCAAATCATGGAAAAAAGAGAC
* *
1366033 TTGTTCCGCTTACTCTGA
193 CTATTCCGCTTACTCTGA
* * *
1366051 AGGGAATATCAAATCTTTGAGAAGATAAACCTATTCCACTTACTGTGAAGGGAATATCAGATCTG
1 AGGGAATATCAAATC-TTGAGAAGATAAACCTGTTCCACTTACTCTGAAGGGAATATCAGATATG
** * *
1366116 G-GGGAG-T-TGATCCATTGAATT-GGAGCAGACTTGTTCCACTTACTCTGAAGGGAATATCAAA
65 GAAAGAGATGTGATCCATTGAATTAGG-GCAGACTTGTTCCACTTACACTCAA-GGAATATCAAA
* * * * * *
1366177 TCTTGGAGAAGAGAGA-CTAGTTCCGCTTACTCTGAAGGGAATATCAAATCTTTGAGAAGAGAGA
128 CCTTGGAAAAGAGAGACCTA-TTCCGCTTACTCTGAAGGGAATATCAAATCATGGAAAAAAGAGA
1366241 CCTATTCCGCTTACTCTGA
192 CCTATTCCGCTTACTCTGA
* * * * * *
1366260 AGGGAATATCAGATATGGAGAAGAGAGACTTGTTCCACTTACTCTGAAGGGAATA
1 AGGGAATATCAAATCTTGAGAAGATAAACCTGTTCCACTTACTCTGAAGGGAATA
1366315 ACAAATCTTT
Statistics
Matches: 228, Mismatches: 30, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
207 2 0.01
208 70 0.31
209 95 0.42
210 3 0.01
211 47 0.21
212 4 0.02
213 7 0.03
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (210 bp):
AGGGAATATCAAATCTTGAGAAGATAAACCTGTTCCACTTACTCTGAAGGGAATATCAGATATGG
AAAGAGATGTGATCCATTGAATTAGGGCAGACTTGTTCCACTTACACTCAAGGAATATCAAACCT
TGGAAAAGAGAGACCTATTCCGCTTACTCTGAAGGGAATATCAAATCATGGAAAAAAGAGACCTA
TTCCGCTTACTCTGA
Found at i:1366320 original size:95 final size:96
Alignment explanation
Indices: 1366149--1366365 Score: 319
Period size: 95 Copynumber: 2.3 Consensus size: 96
1366139 AGCAGACTTG
* * *
1366149 TTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGAGAGACTAGTTCCGCTTACTCTGAAG
1 TTCCGCTTACTCTGAAGGGAATATCAAATCATGGAGAAGAGAGACTAGTTCCACTTACTCTGAAG
* *
1366214 GGAATATCAAATCTTTGAGAAGAGAGACCTA
66 GGAATAACAAATCTTTGAGAAGAAAGACCTA
* *
1366245 TTCCGCTTACTCTGAAGGGAATATCAGAT-ATGGAGAAGAGAGACTTGTTCCACTTACTCTGAAG
1 TTCCGCTTACTCTGAAGGGAATATCAAATCATGGAGAAGAGAGACTAGTTCCACTTACTCTGAAG
* *
1366309 GGAATAACAAATCTTTGAGAAGAAAGACTTG
66 GGAATAACAAATCTTTGAGAAGAAAGACCTA
* * *
1366340 TTTCGCTTACTTTGAAAGGAATATCA
1 TTCCGCTTACTCTGAAGGGAATATCA
1366366 CATCTGGGGG
Statistics
Matches: 109, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
95 82 0.75
96 27 0.25
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.28
Consensus pattern (96 bp):
TTCCGCTTACTCTGAAGGGAATATCAAATCATGGAGAAGAGAGACTAGTTCCACTTACTCTGAAG
GGAATAACAAATCTTTGAGAAGAAAGACCTA
Found at i:1366619 original size:42 final size:42
Alignment explanation
Indices: 1366555--1366774 Score: 273
Period size: 42 Copynumber: 5.3 Consensus size: 42
1366545 AGGTCTTATA
* * * * * *
1366555 GATGGCCCGAAAGACTT-ATCATCTTGCTCGAAAGGCTTACA
1 GATGACCCGAAAGATTTAAGCATCATGCTCGAAAGACTTACT
*
1366596 GATGACCC-AAAGTATTTAATCATCATGCTCGAAAGACTTACT
1 GATGACCCGAAAG-ATTTAAGCATCATGCTCGAAAGACTTACT
* * *
1366638 GATGACCCGAAAGATTTAAGCATCATGCTTGGAAGACTTATT
1 GATGACCCGAAAGATTTAAGCATCATGCTCGAAAGACTTACT
* * *
1366680 GATGACCCGAAGGATTTAAACATCATGCTCGGAAGACTTACT
1 GATGACCCGAAAGATTTAAGCATCATGCTCGAAAGACTTACT
* *
1366722 GATGACCCGAAAGATTTAAGCATCATGCTTGGAAGACTTACT
1 GATGACCCGAAAGATTTAAGCATCATGCTCGAAAGACTTACT
*
1366764 GATGGCCCGAA
1 GATGACCCGAA
1366775 GGACTTATAA
Statistics
Matches: 159, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
40 4 0.03
41 10 0.06
42 141 0.89
43 4 0.03
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (42 bp):
GATGACCCGAAAGATTTAAGCATCATGCTCGAAAGACTTACT
Found at i:1366650 original size:20 final size:20
Alignment explanation
Indices: 1366625--1366735 Score: 55
Period size: 20 Copynumber: 5.3 Consensus size: 20
1366615 TCATCATGCT
1366625 CGAAAGACTTACTGATGACC
1 CGAAAGACTTACTGATGACC
* * *
1366645 CGAAAGATTTAAGCATCATG-CT
1 CGAAAGACTT-A-C-TGATGACC
* * *
1366667 TGGAAGACTTATTGATGACC
1 CGAAAGACTTACTGATGACC
* * * *
1366687 CGAAGGATTTAAACATCATG-CT
1 CGAAAGACTT--AC-TGATGACC
*
1366709 CGGAAGACTTACTGATGACC
1 CGAAAGACTTACTGATGACC
1366729 CGAAAGA
1 CGAAAGA
1366736 TTTAAGCATC
Statistics
Matches: 61, Mismatches: 22, Indels: 16
0.62 0.22 0.16
Matches are distributed among these distances:
19 8 0.13
20 25 0.41
21 2 0.03
22 18 0.30
23 8 0.13
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (20 bp):
CGAAAGACTTACTGATGACC
Found at i:1366704 original size:84 final size:84
Alignment explanation
Indices: 1366555--1366777 Score: 313
Period size: 84 Copynumber: 2.7 Consensus size: 84
1366545 AGGTCTTATA
* * * * * * * * * * *
1366555 GATGGCCCGAAAGACTT-ATCATCTTGCTCGAAAGGCTTACAGATGACCCAAAGTATTTAATCAT
1 GATGACCCGAAAGATTTAAGCATCATGCTTGGAAGACTTACTGATGACCCGAAGGATTTAAACAT
1366619 CATGCTCGAAAGACTTACT
66 CATGCTCGAAAGACTTACT
*
1366638 GATGACCCGAAAGATTTAAGCATCATGCTTGGAAGACTTATTGATGACCCGAAGGATTTAAACAT
1 GATGACCCGAAAGATTTAAGCATCATGCTTGGAAGACTTACTGATGACCCGAAGGATTTAAACAT
*
1366703 CATGCTCGGAAGACTTACT
66 CATGCTCGAAAGACTTACT
*
1366722 GATGACCCGAAAGATTTAAGCATCATGCTTGGAAGACTTACTGATGGCCCGAAGGA
1 GATGACCCGAAAGATTTAAGCATCATGCTTGGAAGACTTACTGATGACCCGAAGGA
1366778 CTTATAAATT
Statistics
Matches: 124, Mismatches: 15, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
83 15 0.12
84 109 0.88
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.25
Consensus pattern (84 bp):
GATGACCCGAAAGATTTAAGCATCATGCTTGGAAGACTTACTGATGACCCGAAGGATTTAAACAT
CATGCTCGAAAGACTTACT
Found at i:1378096 original size:23 final size:21
Alignment explanation
Indices: 1378042--1378122 Score: 78
Period size: 20 Copynumber: 3.9 Consensus size: 21
1378032 TTTTGGTGCA
1378042 GAGGGAATCGA-TCCCCCCAT
1 GAGGGAATCGATTCCCCCCAT
* **
1378062 GAGGGAACCGATTCCCCCTTT
1 GAGGGAATCGATTCCCCCCAT
1378083 GAAGGGGAATCGATTCCCCCACA-
1 G-A-GGGAATCGATTCCCCC-CAT
*
1378106 G-GGGAATCGATACCCCC
1 GAGGGAATCGATTCCCCC
1378123 TGGGGTTCTG
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
20 25 0.50
21 8 0.16
22 1 0.02
23 16 0.32
ACGTcount: A:0.25, C:0.33, G:0.26, T:0.16
Consensus pattern (21 bp):
GAGGGAATCGATTCCCCCCAT
Found at i:1378564 original size:2 final size:2
Alignment explanation
Indices: 1378557--1378597 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
1378547 TTATGAAAAC
1378557 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1378598 TGTTTCTCAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1380417 original size:15 final size:15
Alignment explanation
Indices: 1380397--1380426 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1380387 AAGTGTTTTT
1380397 AAATGATAAATGGGA
1 AAATGATAAATGGGA
1380412 AAATGATAAATGGGA
1 AAATGATAAATGGGA
1380427 GAAGTGTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.27, T:0.20
Consensus pattern (15 bp):
AAATGATAAATGGGA
Found at i:1400201 original size:24 final size:24
Alignment explanation
Indices: 1400174--1400221 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
1400164 TGCATGACAT
1400174 TGTACATAGATGTTTTATACATCA
1 TGTACATAGATGTTTTATACATCA
1400198 TGTACATAGATGTTTTATACATCA
1 TGTACATAGATGTTTTATACATCA
1400222 CCAGGAAGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (24 bp):
TGTACATAGATGTTTTATACATCA
Found at i:1400522 original size:40 final size:40
Alignment explanation
Indices: 1400478--1400627 Score: 210
Period size: 40 Copynumber: 3.8 Consensus size: 40
1400468 GGGACACTAA
1400478 GTGTATATGGTGGGCACAACCTTATGTGTAATGCACTTCG
1 GTGTATATGGTGGGCACAACCTTATGTGTAATGCACTTCG
* * **** * *
1400518 GTGTATTTTGTGGGCGTGGCCTTATGTGTAATGCAATTTG
1 GTGTATATGGTGGGCACAACCTTATGTGTAATGCACTTCG
*
1400558 GTGTATATGGTTGGCACAACCTTATGTGTAATGCACTTCG
1 GTGTATATGGTGGGCACAACCTTATGTGTAATGCACTTCG
*
1400598 GTGTATATGGTGGGCACGACCTTATGTGTA
1 GTGTATATGGTGGGCACAACCTTATGTGTA
1400628 GAGCTAAGGT
Statistics
Matches: 91, Mismatches: 19, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 91 1.00
ACGTcount: A:0.20, C:0.15, G:0.29, T:0.36
Consensus pattern (40 bp):
GTGTATATGGTGGGCACAACCTTATGTGTAATGCACTTCG
Found at i:1400611 original size:80 final size:80
Alignment explanation
Indices: 1400478--1400627 Score: 246
Period size: 80 Copynumber: 1.9 Consensus size: 80
1400468 GGGACACTAA
* * ** *
1400478 GTGTATATGGTGGGCACAACCTTATGTGTAATGCACTTCGGTGTATTTTGTGGGCGTGGCCTTAT
1 GTGTATATGGTGGGCACAACCTTATGTGTAATGCACTTCGGTGTATATGGTGGGCACGACCTTAT
1400543 GTGTAATGCAATTTG
66 GTGTAATGCAATTTG
*
1400558 GTGTATATGGTTGGCACAACCTTATGTGTAATGCACTTCGGTGTATATGGTGGGCACGACCTTAT
1 GTGTATATGGTGGGCACAACCTTATGTGTAATGCACTTCGGTGTATATGGTGGGCACGACCTTAT
1400623 GTGTA
66 GTGTA
1400628 GAGCTAAGGT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
80 64 1.00
ACGTcount: A:0.20, C:0.15, G:0.29, T:0.36
Consensus pattern (80 bp):
GTGTATATGGTGGGCACAACCTTATGTGTAATGCACTTCGGTGTATATGGTGGGCACGACCTTAT
GTGTAATGCAATTTG
Found at i:1403765 original size:18 final size:18
Alignment explanation
Indices: 1403742--1403784 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
1403732 AATTATTTAA
1403742 TTATTTTA-TCTTGATCTT
1 TTATTTTATTCTT-ATCTT
1403760 TTATTTTATTCTTATCTT
1 TTATTTTATTCTTATCTT
1403778 TTATTTT
1 TTATTTT
1403785 TAAAACAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 20 0.83
19 4 0.17
ACGTcount: A:0.16, C:0.09, G:0.02, T:0.72
Consensus pattern (18 bp):
TTATTTTATTCTTATCTT
Found at i:1407649 original size:24 final size:24
Alignment explanation
Indices: 1407622--1407688 Score: 80
Period size: 24 Copynumber: 2.8 Consensus size: 24
1407612 ACGGAGATAT
* * *
1407622 CAGAAATCAAAACAGAATTCATAA
1 CAGAAATCAGAACATAATTCAGAA
* * *
1407646 CAGATATCAGAACATAATCCAGAT
1 CAGAAATCAGAACATAATTCAGAA
1407670 CAGAAATCAGAACATAATT
1 CAGAAATCAGAACATAATT
1407689 TAGGTCATAT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.52, C:0.18, G:0.10, T:0.19
Consensus pattern (24 bp):
CAGAAATCAGAACATAATTCAGAA
Found at i:1407702 original size:24 final size:24
Alignment explanation
Indices: 1407646--1407705 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
1407636 GAATTCATAA
1407646 CAGATATCAGAACATAATCCAGAT
1 CAGATATCAGAACATAATCCAGAT
* ** *
1407670 CAGAAATCAGAACATAATTTAGGT
1 CAGATATCAGAACATAATCCAGAT
*
1407694 CATATATCAGAA
1 CAGATATCAGAA
1407706 AAGAATTCAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.47, C:0.17, G:0.13, T:0.23
Consensus pattern (24 bp):
CAGATATCAGAACATAATCCAGAT
Found at i:1410532 original size:2 final size:2
Alignment explanation
Indices: 1410525--1410573 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
1410515 CTTTTAAAAC
1410525 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1410567 AT AT AT A
1 AT AT AT A
1410574 CCCCATCCCA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1410758 original size:12 final size:12
Alignment explanation
Indices: 1410733--1410802 Score: 52
Period size: 12 Copynumber: 5.8 Consensus size: 12
1410723 ACGGAGATAT
* *
1410733 CAGAAATCAAAA
1 CAGAATTCAGAA
*
1410745 CAGAATTCATAA
1 CAGAATTCAGAA
*
1410757 CAG-ATATCATAA
1 CAGAAT-TCAGAA
* * *
1410769 CACAATCCAGAT
1 CAGAATTCAGAA
*
1410781 CAGAAATCAGAA
1 CAGAATTCAGAA
1410793 CAGAATTCAG
1 CAGAATTCAG
1410803 GTCATATATC
Statistics
Matches: 45, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
11 2 0.04
12 41 0.91
13 2 0.04
ACGTcount: A:0.51, C:0.20, G:0.11, T:0.17
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:1410760 original size:24 final size:24
Alignment explanation
Indices: 1410733--1410825 Score: 78
Period size: 24 Copynumber: 3.9 Consensus size: 24
1410723 ACGGAGATAT
*
1410733 CAGAAATCAAAACAGAATTCATAA
1 CAGAAATCAAAACAGAATTCAGAA
* * * * *
1410757 CAGATATCATAACACAATCCAGAT
1 CAGAAATCAAAACAGAATTCAGAA
* **
1410781 CAGAAATCAGAACAGAATTCAGGT
1 CAGAAATCAAAACAGAATTCAGAA
* * *
1410805 CATATATCAAAACATAATTCA
1 CAGAAATCAAAACAGAATTCA
1410826 AGTCGAAAAT
Statistics
Matches: 54, Mismatches: 15, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 54 1.00
ACGTcount: A:0.51, C:0.19, G:0.10, T:0.20
Consensus pattern (24 bp):
CAGAAATCAAAACAGAATTCAGAA
Found at i:1410837 original size:24 final size:24
Alignment explanation
Indices: 1410736--1410837 Score: 57
Period size: 24 Copynumber: 4.2 Consensus size: 24
1410726 GAGATATCAG
* *
1410736 AAATCAAAACAGAATTCATA-ACAG
1 AAATCAAAACAGAATTCA-AGTCAT
* * * * *
1410760 ATATCATAACACAA-TCCAGATCAG
1 AAATCAAAACAGAATTCAAG-TCAT
* *
1410784 AAATCAGAACAGAATTCAGGTCAT
1 AAATCAAAACAGAATTCAAGTCAT
* *
1410808 ATATCAAAACATAATTCAAGTCGA-
1 AAATCAAAACAGAATTCAAGTC-AT
1410832 AAATCA
1 AAATCA
1410838 GATAAAATAT
Statistics
Matches: 58, Mismatches: 16, Indels: 8
0.71 0.20 0.10
Matches are distributed among these distances:
22 1 0.02
23 2 0.03
24 51 0.88
25 4 0.07
ACGTcount: A:0.51, C:0.19, G:0.10, T:0.21
Consensus pattern (24 bp):
AAATCAAAACAGAATTCAAGTCAT
Found at i:1413741 original size:29 final size:29
Alignment explanation
Indices: 1413709--1413774 Score: 96
Period size: 29 Copynumber: 2.3 Consensus size: 29
1413699 TTTTTATCTC
* * *
1413709 TATTTTTTTATATTTATATCTAAATTTTA
1 TATTTTTTTATATTTAAATATAAAATTTA
1413738 TATTTTTTTATATTTAAATATAAAATTTA
1 TATTTTTTTATATTTAAATATAAAATTTA
*
1413767 TACTTTTT
1 TATTTTTT
1413775 ATTAAAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (29 bp):
TATTTTTTTATATTTAAATATAAAATTTA
Found at i:1413765 original size:23 final size:23
Alignment explanation
Indices: 1413721--1413765 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
1413711 TTTTTTTATA
* * *
1413721 TTTATATCTAAATTTTATATTTT
1 TTTATATCTAAATATAAAATTTT
*
1413744 TTTATATTTAAATATAAAATTT
1 TTTATATCTAAATATAAAATTT
1413766 ATACTTTTTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (23 bp):
TTTATATCTAAATATAAAATTTT
Found at i:1413795 original size:19 final size:19
Alignment explanation
Indices: 1413773--1413824 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
1413763 TTTATACTTT
1413773 TTATTAAAAAAATATATAA
1 TTATTAAAAAAATATATAA
*
1413792 TTA-TAAATAAATAATATAA
1 TTATTAAAAAAAT-ATATAA
* *
1413811 -TATTTAAAATATAT
1 TTATTAAAAAAATAT
1413825 GAAGAAACTA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
18 12 0.44
19 15 0.56
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
TTATTAAAAAAATATATAA
Found at i:1414062 original size:23 final size:23
Alignment explanation
Indices: 1414035--1414098 Score: 60
Period size: 23 Copynumber: 2.8 Consensus size: 23
1414025 TATTAGTTTG
* *
1414035 TTTAACATTTGTGAACATGTTCT
1 TTTAACATTTCTGAACATGTTCA
*
1414058 TTTAA-AGTTTATTG-ACATGTTCA
1 TTTAACA-TTT-CTGAACATGTTCA
*
1414081 TTTAACATTCCTGAACAT
1 TTTAACATTTCTGAACAT
1414099 ATTCGTCTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
22 3 0.09
23 27 0.82
24 3 0.09
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.45
Consensus pattern (23 bp):
TTTAACATTTCTGAACATGTTCA
Found at i:1420294 original size:13 final size:13
Alignment explanation
Indices: 1420268--1420304 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
1420258 TCAAAGAAGA
*
1420268 TTAAAAAG-ACAT
1 TTAAAAAGAAAAT
1420280 TTAAAAAGAAAAT
1 TTAAAAAGAAAAT
1420293 TT-AAAAGAAAAT
1 TTAAAAAGAAAAT
1420305 CCAATATGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 18 0.78
13 5 0.22
ACGTcount: A:0.65, C:0.03, G:0.08, T:0.24
Consensus pattern (13 bp):
TTAAAAAGAAAAT
Found at i:1423031 original size:26 final size:23
Alignment explanation
Indices: 1422964--1423034 Score: 88
Period size: 23 Copynumber: 3.1 Consensus size: 23
1422954 TTTTTTACTG
* * *
1422964 TTCGAATCAAAAATGTATTATTA
1 TTCGAACCAAAACTGTACTATTA
*
1422987 TTCGAACCAAAACTGTACTATTG
1 TTCGAACCAAAACTGTACTATTA
* *
1423010 TTCTAACCAAAACTGTACTACTA
1 TTCGAACCAAAACTGTACTATTA
1423033 TT
1 TT
1423035 TCTCTCACTG
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.35
Consensus pattern (23 bp):
TTCGAACCAAAACTGTACTATTA
Found at i:1423105 original size:33 final size:33
Alignment explanation
Indices: 1423006--1423105 Score: 101
Period size: 33 Copynumber: 3.0 Consensus size: 33
1422996 AAACTGTACT
* * * *
1423006 ATTGTTCTAACCAAAACTGTACTACTATTTCTCTC
1 ATTGTTCAAACCAAAATTGTAATGCTATTT-T-TC
* * * * *
1423041 ACTGTTCGAACCAAAATTGTATTGTTGTTTTTC
1 ATTGTTCAAACCAAAATTGTAATGCTATTTTTC
1423074 ATTGTTCAAACCAAAATTGTAATGCTATTTTT
1 ATTGTTCAAACCAAAATTGTAATGCTATTTTT
1423106 TTACTTTCCA
Statistics
Matches: 53, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
33 29 0.55
34 1 0.02
35 23 0.43
ACGTcount: A:0.29, C:0.18, G:0.10, T:0.43
Consensus pattern (33 bp):
ATTGTTCAAACCAAAATTGTAATGCTATTTTTC
Found at i:1423514 original size:6 final size:6
Alignment explanation
Indices: 1423505--1423556 Score: 50
Period size: 6 Copynumber: 8.0 Consensus size: 6
1423495 AACAAACCAG
* *
1423505 AAAAAT AAAAAT AAAAAT AAAAATT GAAACAACA AAAAAT AAAAGT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAA-T -AAA-AA-T AAAAAT AAAAAT AAAAAT
1423557 GGGTTACCTC
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
6 27 0.71
7 3 0.08
8 6 0.16
9 2 0.05
ACGTcount: A:0.77, C:0.04, G:0.04, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:1423915 original size:13 final size:12
Alignment explanation
Indices: 1423888--1423924 Score: 58
Period size: 12 Copynumber: 3.1 Consensus size: 12
1423878 TAAATGAATA
1423888 TTAAAAAGAAAT
1 TTAAAAAGAAAT
1423900 TTAAAAAGAAAGT
1 TTAAAAAGAAA-T
1423913 TTAAAAA-AAAT
1 TTAAAAAGAAAT
1423924 T
1 T
1423925 CAATATTGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 2 0.08
12 14 0.58
13 8 0.33
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (12 bp):
TTAAAAAGAAAT
Found at i:1428751 original size:81 final size:81
Alignment explanation
Indices: 1428656--1429389 Score: 1083
Period size: 81 Copynumber: 9.0 Consensus size: 81
1428646 CATTTAGTGG
*
1428656 TTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTTTGTCAAATGCACA
1 TTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACA
*
1428721 GCTAGGCAATTAATTT
66 GCTAGGCAATTAATCT
* * * *
1428737 TTTACTCAAAGGTATTTAACCTTTCATCTAACTGTCATGATTGACACATTTCTGTCAAGTTCACA
1 TTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACA
*
1428802 TCTAGGCAATTAATCT
66 GCTAGGCAATTAATCT
* * *
1428818 TTTACTCAAATGTATTTAATCTTTCATCTAACAGGCATGATTGACACCTTTCTGTCAAATGCACA
1 TTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACA
1428883 GCTAGGCAATTAATCT
66 GCTAGGCAATTAATCT
* * * *
1428899 TTTACTCAAAGGTATTCAACCTTTCATCTAACTAGCATGATTGACACCTTTCTGACAAATACACA
1 TTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACA
**
1428964 GCTAGAAAATTAATCT
66 GCTAGGCAATTAATCT
* * *
1428980 TTTACTCCAAGGTATTTAACCTTTCATCTAACTGACATTATTGACACCTTTCTGTCAAATGCACA
1 TTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACA
1429045 GCTAGGCAATTAATCT
66 GCTAGGCAATTAATCT
* * *
1429061 TTTACCCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACATTTCTGTCAAATGAACA
1 TTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACA
* *
1429126 ACTAGACAATTAATCT
66 GCTAGGCAATTAATCT
** * *
1429142 TTTACTCAAAGGTATTTAACCTTTCATCTAACTGAAATGATTGACACCTTTCTATCAAATGAACA
1 TTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACA
* * *
1429207 ACTAGGTAATTAATAT
66 GCTAGGCAATTAATCT
* * * **
1429223 TTTACTCAGAGGTATTTAACCTTTCATCTAATTGGCATGATTGACACCTTTCTATCAAATGCATT
1 TTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACA
*
1429288 G-TCAGGCAATAAATCT
66 GCT-AGGCAATTAATCT
*
1429304 TTTACTCAAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAACGCAC
1 TTTACTC-AAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCAC
* *
1429369 AACTAGGCAATTAGTCT
65 AGCTAGGCAATTAATCT
1429386 TTTA
1 TTTA
1429390 TTTTAAAATA
Statistics
Matches: 581, Mismatches: 69, Indels: 5
0.89 0.11 0.01
Matches are distributed among these distances:
80 1 0.00
81 512 0.88
82 67 0.12
83 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.36
Consensus pattern (81 bp):
TTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACA
GCTAGGCAATTAATCT
Found at i:1435747 original size:81 final size:81
Alignment explanation
Indices: 1435611--1436507 Score: 1314
Period size: 81 Copynumber: 11.1 Consensus size: 81
1435601 AAGCATTTAG
* *
1435611 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTAACACATTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGC
* *
1435676 ATAGCTAGGCAATTAA
66 ACAACTAGGCAATTAA
*
1435692 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAGTGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGC
1435757 ACAACTAGGCAATTAA
66 ACAACTAGGCAATTAA
* * * *
1435773 TCTTTTACTCAAAGGTTTTTAACCTTTAATCTAATTGGCATGATTGACACCTTTCTTTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGC
1435838 ACAACTAGGCAATTAA
66 ACAACTAGGCAATTAA
* * * * * *
1435854 TCTTTTACTAAAAGGTGTTTAACATTTCAACTAACTGGCATGAATGACACATTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGC
1435919 ACAACTAGGCAATTAA
66 ACAACTAGGCAATTAA
* * * *
1435935 TCTTTTACTCAAAAGTATTTATCCTTTCATCTAACTAGAATGATTGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGC
1436000 ACAGA-TAGGCAATTAA
66 ACA-ACTAGGCAATTAA
* * *
1436016 TCTTTTACTCAAAGGTATTTAACCTTTCAACTAACTGGCATGATTGACGCCATTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGC
1436081 ACAACTAGGCAATTAA
66 ACAACTAGGCAATTAA
* * *
1436097 TC-TTTACTCAAAGGTATTTAACCTTTCATCTAACTAGCATGATTGACACATTTCTGTCAAGTGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGC
*
1436161 ACAGCTAGGCAATTAA
66 ACAACTAGGCAATTAA
* ** * *
1436177 TATTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACATATTTTTATCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGC
*
1436242 ACAACTAGGAAATTAA
66 ACAACTAGGCAATTAA
* * *
1436258 TTTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTATGTCAAATGG
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGC
*
1436323 ACAACTAGGCAATTCA
66 ACAACTAGGCAATTAA
* *
1436339 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAAATGGCATGATTGACTA-CTTTCTATCAAATG
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGAC-ACCTTTCTGTCAAATG
* * * * *
1436403 TAGAGCTGGGTAATTAA
65 CACAACTAGGCAATTAA
* *
1436420 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACATTTATGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGC
** * *
1436485 ACTGCTTGGTAATTAA
66 ACAACTAGGCAATTAA
1436501 TCTTTTA
1 TCTTTTA
1436508 TTTTAAAATG
Statistics
Matches: 734, Mismatches: 77, Indels: 10
0.89 0.09 0.01
Matches are distributed among these distances:
80 74 0.10
81 658 0.90
82 2 0.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (81 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGC
ACAACTAGGCAATTAA
Found at i:1437058 original size:94 final size:95
Alignment explanation
Indices: 1436914--1437090 Score: 266
Period size: 94 Copynumber: 1.9 Consensus size: 95
1436904 CCATGGTATC
* * ** * *
1436914 GATACTTCTATACTGTGGTACCGATACTCCCTTTTAGTATCAATGTCATTTCTACATTCT-GGAT
1 GATACTTCTATACTATGGTACCGATACTCCCTTTCAGTATCAATACCATTTCGACATTCTAGAAT
*
1436978 CCATGGTATCGATACTTTTCTCCTAGTACT
66 CCATAGTATCGATACTTTTCTCCTAGTACT
* *
1437008 GATACTTCTATACTATGGTACCGATACTCCCTTTCAGTATCGATACCATTTCGGCATTCTAGAAT
1 GATACTTCTATACTATGGTACCGATACTCCCTTTCAGTATCAATACCATTTCGACATTCTAGAAT
1437073 CCATAGTATCGATACTTT
66 CCATAGTATCGATACTTT
1437091 CCTTTTTGGT
Statistics
Matches: 73, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
94 53 0.73
95 20 0.27
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.38
Consensus pattern (95 bp):
GATACTTCTATACTATGGTACCGATACTCCCTTTCAGTATCAATACCATTTCGACATTCTAGAAT
CCATAGTATCGATACTTTTCTCCTAGTACT
Found at i:1439478 original size:30 final size:31
Alignment explanation
Indices: 1439431--1439489 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
1439421 TATTTTTAAT
*
1439431 TTTAATTCTGAGGACTAAATTGAAATTTTGG
1 TTTAATTCTGAGGACTAAAATGAAATTTTGG
* *
1439462 TTTAATT-TGGGGACTAAAATGAATTTTT
1 TTTAATTCTGAGGACTAAAATGAAATTTT
1439490 AAATCAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 18 0.72
31 7 0.28
ACGTcount: A:0.32, C:0.05, G:0.19, T:0.44
Consensus pattern (31 bp):
TTTAATTCTGAGGACTAAAATGAAATTTTGG
Found at i:1443707 original size:21 final size:21
Alignment explanation
Indices: 1443652--1443707 Score: 53
Period size: 21 Copynumber: 2.6 Consensus size: 21
1443642 ATAAAATTTT
1443652 ATTTTG-AAAATAAAACAAAAC
1 ATTTTGTAAAAT-AAACAAAAC
* *
1443673 ATTTTGATATAATAAA-AAAGC
1 ATTTTG-TAAAATAAACAAAAC
1443694 ATTTTTGTAAAATA
1 A-TTTTGTAAAATA
1443708 TTAATAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
21 17 0.59
22 8 0.28
23 4 0.14
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.34
Consensus pattern (21 bp):
ATTTTGTAAAATAAACAAAAC
Found at i:1444184 original size:49 final size:49
Alignment explanation
Indices: 1444125--1444292 Score: 273
Period size: 49 Copynumber: 3.4 Consensus size: 49
1444115 AATTACACAA
* * *
1444125 TTATGCATTTAACTTTCATTAGTGGCACCTTCTATATCGAAATGCATCG
1 TTATGCATTTAACTTTCATTAGTGGCACCTTTTATACCAAAATGCATCG
* * *
1444174 TTATGTATTTAACTTTCATTAGTGGCACCTTTTATGCCAAAATGCACCG
1 TTATGCATTTAACTTTCATTAGTGGCACCTTTTATACCAAAATGCATCG
*
1444223 TTATGCATTTAACTTTCATTAGTGGCACCTTTTATACCTAAATGCATCG
1 TTATGCATTTAACTTTCATTAGTGGCACCTTTTATACCAAAATGCATCG
1444272 TTATGCATTTAACTTTCATTA
1 TTATGCATTTAACTTTCATTA
1444293 TAGAGCAGTT
Statistics
Matches: 109, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 109 1.00
ACGTcount: A:0.27, C:0.20, G:0.12, T:0.41
Consensus pattern (49 bp):
TTATGCATTTAACTTTCATTAGTGGCACCTTTTATACCAAAATGCATCG
Found at i:1451118 original size:49 final size:49
Alignment explanation
Indices: 1451035--1451232 Score: 258
Period size: 49 Copynumber: 4.0 Consensus size: 49
1451025 GAATACCATG
*
1451035 AGTGGCACCTTTTAT-TCTGAAAATGCACCGTTATGTATTTAACTTTCATT
1 AGTGGCACCTTTTATGTC--AAAATGCACCGTTATGCATTTAACTTTCATT
*
1451085 AGTGGCACCTTTTATG-CTAAAATGCACTGTTATGCATTTAACTATT-ATT
1 AGTGGCACCTTTTATGTC-AAAATGCACCGTTATGCATTTAACT-TTCATT
* * * * *
1451134 AGCGGTACCTTTTATGTCGAAATGCACCATTATGAATTTAACTTTCATT
1 AGTGGCACCTTTTATGTCAAAATGCACCGTTATGCATTTAACTTTCATT
* *
1451183 AGTGGCACCTTTTATGTCGAAATGCACTGTTATGCATTTAACTTTCATT
1 AGTGGCACCTTTTATGTCAAAATGCACCGTTATGCATTTAACTTTCATT
1451232 A
1 A
1451233 TAGAGCAGTT
Statistics
Matches: 130, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
48 2 0.02
49 109 0.84
50 19 0.15
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.40
Consensus pattern (49 bp):
AGTGGCACCTTTTATGTCAAAATGCACCGTTATGCATTTAACTTTCATT
Found at i:1451224 original size:98 final size:99
Alignment explanation
Indices: 1451041--1451225 Score: 304
Period size: 98 Copynumber: 1.9 Consensus size: 99
1451031 CATGAGTGGC
* *
1451041 ACCTTTTATTCTGAAAATGCACCGTTATGTATTTAACTTTCATTAGTGGCACCTTTTATGCTAAA
1 ACCTTTTATTCTGAAAATGCACCATTATGAATTTAACTTTCATTAGTGGCACCTTTTATGCTAAA
1451106 ATGCACTGTTATGCATTTAACTATTATTAGCGGT
66 ATGCACTGTTATGCATTTAACTATTATTAGCGGT
*
1451140 ACCTTTTATGTC-G-AAATGCACCATTATGAATTTAACTTTCATTAGTGGCACCTTTTATG-TCG
1 ACCTTTTAT-TCTGAAAATGCACCATTATGAATTTAACTTTCATTAGTGGCACCTTTTATGCT-A
1451202 AAATGCACTGTTATGCATTTAACT
64 AAATGCACTGTTATGCATTTAACT
1451226 TTCATTATAG
Statistics
Matches: 81, Mismatches: 3, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
97 1 0.01
98 68 0.84
99 10 0.12
100 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.41
Consensus pattern (99 bp):
ACCTTTTATTCTGAAAATGCACCATTATGAATTTAACTTTCATTAGTGGCACCTTTTATGCTAAA
ATGCACTGTTATGCATTTAACTATTATTAGCGGT
Found at i:1464264 original size:13 final size:13
Alignment explanation
Indices: 1464246--1464272 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1464236 TGACAAAAAT
1464246 AATAAAATAAAGA
1 AATAAAATAAAGA
1464259 AATAAAATAAAGA
1 AATAAAATAAAGA
1464272 A
1 A
1464273 CATATATCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (13 bp):
AATAAAATAAAGA
Found at i:1466842 original size:18 final size:18
Alignment explanation
Indices: 1466819--1466853 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
1466809 CTAGGTCACG
1466819 TGGGTTATAAAGAAAAAT
1 TGGGTTATAAAGAAAAAT
1466837 TGGGTTATAAAGAAAAA
1 TGGGTTATAAAGAAAAA
1466854 GTGAGAGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.23, T:0.26
Consensus pattern (18 bp):
TGGGTTATAAAGAAAAAT
Found at i:1474050 original size:12 final size:13
Alignment explanation
Indices: 1474029--1474065 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 13
1474019 TTAAAAAGAA
1474029 AAATAAAATAAAAT
1 AAAT-AAATAAAAT
1474043 AAAT-AAT-AAAT
1 AAATAAATAAAAT
1474054 AAATAAATAAAA
1 AAATAAATAAAA
1474066 AGCCAGTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
11 8 0.38
12 6 0.29
13 3 0.14
14 4 0.19
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (13 bp):
AAATAAATAAAAT
Found at i:1474059 original size:15 final size:16
Alignment explanation
Indices: 1474034--1474063 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1474024 AAGAAAAATA
1474034 AAATAAAATAAATAAT
1 AAATAAAATAAATAAT
1474050 AAAT-AAATAAATAA
1 AAATAAAATAAATAA
1474064 AAAGCCAGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (16 bp):
AAATAAAATAAATAAT
Found at i:1474251 original size:123 final size:119
Alignment explanation
Indices: 1474117--1474553 Score: 561
Period size: 119 Copynumber: 3.6 Consensus size: 119
1474107 GTTAGTAAGT
* * * * * * *
1474117 TATAAAAGTTAGCGGTTAGTATAGTCCGGACCATAATAATGTAGATCTTACCCAGGATTGAGTCA
1 TATAAAAGTTAGTGGTTAGCAGAGTCCGAACCATAATAATGTAGATCTTACCCCGGATCGGGTCA
1474182 CCACAAGGTCGAATCGAATAATGCAAACAAATATATAAAATAAAATAAAATAAAAAAA
66 CCACAAGGTCGAATCGAATAATGCAAACAAATATAT---A-AAAATAAAATAAAAAAA
* ** * *
1474240 TATAAAAGTTAGTGGTTAGCAAAGTCTTAACCATAATAATGTGGATCTTACCCGGGATCGGGTCA
1 TATAAAAGTTAGTGGTTAGCAGAGTCCGAACCATAATAATGTAGATCTTACCCCGGATCGGGTCA
* * *
1474305 CCACTAGGTCCAATCGAATTATGCAAACAAATATATAAAAATAAAATAAAAAAA
66 CCACAAGGTCGAATCGAATAATGCAAACAAATATATAAAAATAAAATAAAAAAA
* * * **
1474359 TAAAAAAGTTAGTGGTTAGCAGAGTTCGAACCATAATAATGTAAATCTTACCCCTAATCGGGTCA
1 TATAAAAGTTAGTGGTTAGCAGAGTCCGAACCATAATAATGTAGATCTTACCCCGGATCGGGTCA
* *
1474424 CCACAAGGTCGAGTCGTATAATGCAAACAAATATATAAAAATAAAATAAAAAAA
66 CCACAAGGTCGAATCGAATAATGCAAACAAATATATAAAAATAAAATAAAAAAA
** ** * * *
1474478 -ATAAAAAATAGTGGTTAGCAGAGTCTAAACTATAATAATGTGGATCTTACCCCGGATTGGGTCA
1 TATAAAAGTTAGTGGTTAGCAGAGTCCGAACCATAATAATGTAGATCTTACCCCGGATCGGGTCA
*
1474542 CGACAAGGTCGA
66 CCACAAGGTCGA
1474554 GTCAAATATA
Statistics
Matches: 273, Mismatches: 41, Indels: 5
0.86 0.13 0.02
Matches are distributed among these distances:
118 63 0.23
119 121 0.44
120 1 0.00
123 88 0.32
ACGTcount: A:0.44, C:0.15, G:0.17, T:0.24
Consensus pattern (119 bp):
TATAAAAGTTAGTGGTTAGCAGAGTCCGAACCATAATAATGTAGATCTTACCCCGGATCGGGTCA
CCACAAGGTCGAATCGAATAATGCAAACAAATATATAAAAATAAAATAAAAAAA
Found at i:1476221 original size:136 final size:135
Alignment explanation
Indices: 1475859--1476295 Score: 526
Period size: 136 Copynumber: 3.3 Consensus size: 135
1475849 ATATCATATT
* * * * * *
1475859 TGAAAGGAGAAGAATATGCTCCACTACTCTTTAGGGGAGACCAGACTCGAGA-AAACTTTGATCC
1 TGAAAGAAAAAGAATCTGCTCCACTACTCTTTAGGGGAGATCAGACTCGAAATAAAATTTGATCC
* * *
1475923 ACTTTGCTGCTTTTCAGGGAAGATTGAATCGAACGTGATTTGCTTCACTG-T-TATAAGGAAGAC
66 ACTTTGCTGCTCTTCAGGGAAGATTGAATCGAACGTGATTTGCTTCGCTGCTCT-TCAGGAAGAC
*
1475986 CAAATA
130 CAAATC
* * * ***
1475992 TGAAA-AAAAAGAATCTGCTCAACTACTCTTTAGGAGAGATTAGACTCGAAAT-TTTTTTGATCC
1 TGAAAGAAAAAGAATCTGCTCCACTACTCTTTAGGGGAGATCAGACTCGAAATAAAATTTGATCC
* ** *
1476055 ACTTTGTTGCTCTTCAGGGAAGATTGAATCGAATATGATTTGCTTCGCTGCTCTTCAGGAAGTCC
66 ACTTTGCTGCTCTTCAGGGAAGATTGAATCGAACGTGATTTGCTTCGCTGCTCTTCAGGAAGACC
1476120 AAATC
131 AAATC
* * * *
1476125 TGAAAGAAGAATAATCTGTTCCGCTACTCTTTAGGGGAGATCAGACTCGAAAATAAAATTTGATC
1 TGAAAGAAAAAGAATCTGCTCCACTACTCTTTAGGGGAGATCAGACTCG-AAATAAAATTTGATC
* * * * *
1476190 AACTTCT-CTACTCTTCAAGGAAGATTGAATCGAGCGTGATTTACTTCGCTGCTCTTCAGGAAGA
65 CACTT-TGCTGCTCTTCAGGGAAGATTGAATCGAACGTGATTTGCTTCGCTGCTCTTCAGGAAGA
1476254 CCAAATC
129 CCAAATC
* *
1476261 TGAAAGAAAAAGAATCTTCTCCACTGCTCTTTAGG
1 TGAAAGAAAAAGAATCTGCTCCACTACTCTTTAGG
1476296 AAGACCAAAC
Statistics
Matches: 253, Mismatches: 44, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
132 91 0.36
133 24 0.09
134 37 0.15
135 4 0.02
136 96 0.38
137 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.30
Consensus pattern (135 bp):
TGAAAGAAAAAGAATCTGCTCCACTACTCTTTAGGGGAGATCAGACTCGAAATAAAATTTGATCC
ACTTTGCTGCTCTTCAGGGAAGATTGAATCGAACGTGATTTGCTTCGCTGCTCTTCAGGAAGACC
AAATC
Found at i:1476757 original size:21 final size:20
Alignment explanation
Indices: 1476714--1476757 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
1476704 TCATTAATAT
* **
1476714 TTTGAGAAAGTGAAAAGGTC
1 TTTGAGAAAGAGAAAAGAAC
1476734 TTTGAGAAAGAGAAAAAGAAC
1 TTTGAGAAAGAG-AAAAGAAC
1476755 TTT
1 TTT
1476758 CACTAAAACA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.45, C:0.05, G:0.25, T:0.25
Consensus pattern (20 bp):
TTTGAGAAAGAGAAAAGAAC
Found at i:1477171 original size:135 final size:135
Alignment explanation
Indices: 1477017--1477261 Score: 330
Period size: 135 Copynumber: 1.8 Consensus size: 135
1477007 ATATCAACTT
* * ** * *
1477017 CTCTTCGAGAAAAATTCAAGAAGGACAACAATAAAATATTAACTCCTCTTTGCGAGAAAGTC-AA
1 CTCTTCGAGAAAAAGTCAAGAAGGACAACAATAAAATATTAACTCCTCATCACAAGAAAGGCAAA
* * * *
1477081 GAAGGACAACACTAAAATATTTACTCCTCTTCATGAGAAAGTCAAGGAAGACAACACTAAAAAAT
66 GAA-GAAAACACTAAAATATTGACTCATCTTCATGAAAAAGTCAAGGAAGACAACACTAAAAAAT
1477146 TGACTC
130 TGACTC
* * * * *
1477152 CTCTTCGTGAGAAAGTCAAGAAGGGCAACACTAAAATATTGACTCCTCATCACAAGAAAGGCAAA
1 CTCTTCGAGAAAAAGTCAAGAAGGACAACAATAAAATATTAACTCCTCATCACAAGAAAGGCAAA
*
1477217 GAAGAAAACACTGAAATATTGACTCATCTTCATGAAAAAGTCAAG
66 GAAGAAAACACTAAAATATTGACTCATCTTCATGAAAAAGTCAAG
1477262 AGTAACACTA
Statistics
Matches: 93, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
135 88 0.95
136 5 0.05
ACGTcount: A:0.44, C:0.19, G:0.16, T:0.21
Consensus pattern (135 bp):
CTCTTCGAGAAAAAGTCAAGAAGGACAACAATAAAATATTAACTCCTCATCACAAGAAAGGCAAA
GAAGAAAACACTAAAATATTGACTCATCTTCATGAAAAAGTCAAGGAAGACAACACTAAAAAATT
GACTC
Found at i:1477210 original size:45 final size:45
Alignment explanation
Indices: 1476968--1477262 Score: 281
Period size: 45 Copynumber: 6.6 Consensus size: 45
1476958 TGAAAGGTAA
* * * * * * **
1476968 ACTCTTCTTCAAGAGAAATTCAAAAAGGGCAATACTAAAATATCA
1 ACTCCTCTTCACGAGAAAGTCAAGAAGGACAACACTAAAATATTG
* * * * *
1477013 ACTTCTCTTCGA-GAAAAATTCAAGAAGGACAACAATAAAATATTA
1 ACTCCTCTTC-ACGAGAAAGTCAAGAAGGACAACACTAAAATATTG
** *
1477058 ACTCCTCTTTGCGAGAAAGTCAAGAAGGACAACACTAAAATATTT
1 ACTCCTCTTCACGAGAAAGTCAAGAAGGACAACACTAAAATATTG
* *
1477103 ACTCCTCTTCATGAGAAAGTCAAGGAA-GACAACACTAAAAAATTG
1 ACTCCTCTTCACGAGAAAGTCAA-GAAGGACAACACTAAAATATTG
** *
1477148 ACTCCTCTTCGTGAGAAAGTCAAGAAGGGCAACACTAAAATATTG
1 ACTCCTCTTCACGAGAAAGTCAAGAAGGACAACACTAAAATATTG
* * * * *
1477193 ACTCCTCATCACAAGAAAGGCAAAGAA-GAAAACACTGAAATATTG
1 ACTCCTCTTCACGAGAAAGTC-AAGAAGGACAACACTAAAATATTG
* * *
1477238 ACTCATCTTCATGAAAAAGTCAAGA
1 ACTCCTCTTCACGAGAAAGTCAAGA
1477263 GTAACACTAA
Statistics
Matches: 208, Mismatches: 37, Indels: 11
0.81 0.14 0.04
Matches are distributed among these distances:
44 7 0.03
45 192 0.92
46 9 0.04
ACGTcount: A:0.44, C:0.19, G:0.15, T:0.22
Consensus pattern (45 bp):
ACTCCTCTTCACGAGAAAGTCAAGAAGGACAACACTAAAATATTG
Found at i:1477283 original size:135 final size:135
Alignment explanation
Indices: 1477017--1477308 Score: 324
Period size: 135 Copynumber: 2.2 Consensus size: 135
1477007 ATATCAACTT
* * ** * *
1477017 CTCTTCGAGA-AAAATTCAAGAAGGACAACAATAAAATATTAACTCCTCTTTGCGAGAAAGTCAA
1 CTCTTCGTGAGAAAA-TCAAGAAGGACAACAATAAAATATTAACTCCTCATCACAAGAAAGGCAA
* * * *
1477081 GAAGGACAACACTAAAATATTTACTCCTCTTCATGAGAAAGTCAAGGAAGACAACACTAAAAAAT
65 GAAGGAAAACACTAAAATATTGACTCATCTTCATGAAAAAGTCAAGGAAGACAACACTAAAAAAT
1477146 TGACTC
130 TGACTC
* * * *
1477152 CTCTTCGTGAGAAAGTCAAGAAGGGCAACACTAAAATATTGACTCCTCATCACAAGAAAGGCAAA
1 CTCTTCGTGAGAAAATCAAGAAGGACAACAATAAAATATTAACTCCTCATCACAAGAAAGGC-AA
* *
1477217 GAA-GAAAACACTGAAATATTGACTCATCTTCATGAAAAAGTCAA-G-AG-TAACACTAATGAGA
65 GAAGGAAAACACTAAAATATTGACTCATCTTCATGAAAAAGTCAAGGAAGACAACACTAA--A-A
* *
1477278 GATTGACTT
127 AATTGACTC
* *
1477287 CTCTTCATAAGAAAATCAAGAA
1 CTCTTCGTGAGAAAATCAAGAA
1477309 TAACATTGAA
Statistics
Matches: 131, Mismatches: 21, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
132 8 0.06
133 2 0.02
134 2 0.02
135 111 0.85
136 8 0.06
ACGTcount: A:0.44, C:0.18, G:0.15, T:0.22
Consensus pattern (135 bp):
CTCTTCGTGAGAAAATCAAGAAGGACAACAATAAAATATTAACTCCTCATCACAAGAAAGGCAAG
AAGGAAAACACTAAAATATTGACTCATCTTCATGAAAAAGTCAAGGAAGACAACACTAAAAAATT
GACTC
Found at i:1477299 original size:90 final size:89
Alignment explanation
Indices: 1477073--1477300 Score: 253
Period size: 90 Copynumber: 2.5 Consensus size: 89
1477063 TCTTTGCGAG
* * * * * *
1477073 AAAGTCAAGAAGGACAACACTAAAATATTTACTCCTCTTCATGAGAAAGTCAAGGAAGACAACAC
1 AAAGTCAAGAAGG-CAACACTAAAAGATTGACTCCTCTTCATAAGAAAGGCAAAGAAGAAAACAC
* * *
1477138 TAAAAAATTGACTCCTCTTCGTGAG
65 TAAAAAATTGACTCATCTTCATGAA
* * *
1477163 AAAGTCAAGAAGGGCAACACTAAAATATTGACTCCTCATCACAAGAAAGGCAAAGAAGAAAACAC
1 AAAGTCAAGAA-GGCAACACTAAAAGATTGACTCCTCTTCATAAGAAAGGCAAAGAAGAAAACAC
* *
1477228 TGAAATATTGACTCATCTTCATGAA
65 TAAAAAATTGACTCATCTTCATGAA
* *
1477253 AAAGTCAAG-A-GTAACACTAATGAGAGATTGACTTCTCTTCATAAGAAA
1 AAAGTCAAGAAGGCAACACTAA--A-AGATTGACTCCTCTTCATAAGAAA
1477301 ATCAAGAATA
Statistics
Matches: 117, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
87 9 0.08
89 2 0.02
90 104 0.89
91 2 0.02
ACGTcount: A:0.44, C:0.18, G:0.16, T:0.21
Consensus pattern (89 bp):
AAAGTCAAGAAGGCAACACTAAAAGATTGACTCCTCTTCATAAGAAAGGCAAAGAAGAAAACACT
AAAAAATTGACTCATCTTCATGAA
Found at i:1477378 original size:42 final size:42
Alignment explanation
Indices: 1477218--1477738 Score: 240
Period size: 42 Copynumber: 13.5 Consensus size: 42
1477208 AAAGGCAAAG
* * * **
1477218 AAGAA-AACACTGAAATATTGAC-TCATCTTCATGAAAAAGTC
1 AAGAATAACATTGAAAGATTGACTTC-TCTTCACGAAGGAGTC
* * * * *
1477259 AAGAGTAACACTAATGAGAGATTGACTTCTCTTCA-TAAGAAAATC
1 AAGAATAACA-T--TGAAAGATTGACTTCTCTTCACGAAG-GAGTC
* * *
1477304 AAGAATAACATTGAACGATTGGCTCCTCTTCACGAAGGAGTC
1 AAGAATAACATTGAAAGATTGACTTCTCTTCACGAAGGAGTC
* * *
1477346 AAGAATAACATTGAAAGATTGACTACTCTTCACGAGGGAGTT
1 AAGAATAACATTGAAAGATTGACTTCTCTTCACGAAGGAGTC
*
1477388 AAGAATAAC----AAAGATTGATTTCTCTTCAC-AAGGAAGTC
1 AAGAATAACATTGAAAGATTGACTTCTCTTCACGAAGG-AGTC
* * ***
1477426 AATAATAACATTGAAAGATTGACTCCTCTTTGTG-AGGAAGTC
1 AAGAATAACATTGAAAGATTGACTTCTCTTCACGAAGG-AGTC
*
1477468 AGGAATAAC----AAAGATTGACTTCTCTTCAC--AGGAGTC
1 AAGAATAACATTGAAAGATTGACTTCTCTTCACGAAGGAGTC
*
1477504 AAGAATAAC-----AA-ATTGA---CTCTTCATG-AGGAGTC
1 AAGAATAACATTGAAAGATTGACTTCTCTTCACGAAGGAGTC
*
1477536 -A-AATAAC----AAAGATT-AC-TCTCTT--TG-AGGAGT-
1 AAGAATAACATTGAAAGATTGACTTCTCTTCACGAAGGAGTC
* *
1477566 TAGAATAAC----AAAGATTGACTTCTCTTCAC--AGGAAGTT
1 AAGAATAACATTGAAAGATTGACTTCTCTTCACGAAGG-AGTC
1477603 AAGAATAACATTGAAAGA-TGAC-TC-CTTCACG-A-GAGTC
1 AAGAATAACATTGAAAGATTGACTTCTCTTCACGAAGGAGTC
* *
1477640 AGGAATAAC----AAAGATTGACTTCTCCTCACG-AGGAAGTC
1 AAGAATAACATTGAAAGATTGACTTCTCTTCACGAAGG-AGTC
* *
1477678 AAGAATAAC----AAAGATCGACTTCTATTCACG-AGGAAGTC
1 AAGAATAACATTGAAAGATTGACTTCTCTTCACGAAGG-AGTC
* * *
1477716 GATAATAACATTGAAATATTGAC
1 AAGAATAACATTGAAAGATTGAC
1477739 ACCTCTTAAT
Statistics
Matches: 389, Mismatches: 51, Indels: 79
0.75 0.10 0.15
Matches are distributed among these distances:
30 6 0.02
31 20 0.05
32 23 0.06
33 12 0.03
34 15 0.04
35 7 0.02
36 22 0.06
37 26 0.07
38 97 0.25
39 3 0.01
40 4 0.01
41 9 0.02
42 108 0.28
43 3 0.01
44 3 0.01
45 29 0.07
46 2 0.01
ACGTcount: A:0.40, C:0.17, G:0.18, T:0.26
Consensus pattern (42 bp):
AAGAATAACATTGAAAGATTGACTTCTCTTCACGAAGGAGTC
Found at i:1477413 original size:38 final size:38
Alignment explanation
Indices: 1477277--1477991 Score: 370
Period size: 38 Copynumber: 19.4 Consensus size: 38
1477267 CACTAATGAG
** ** *
1477277 AGATTGACTTCTCTTCATAAGAAAATCAAGAATAACATTGA
1 AGATTGACTTCTCTTCACGAGGGAGTCAAGAATAACA---A
* * *
1477318 ACGATTGGCTCCTCTTCACGAAGGAGTCAAGAATAACATTGAA
1 A-GATTGACTTCTCTTCACGAGGGAGTCAAGAATAAC----AA
* *
1477361 AGATTGACTACTCTTCACGAGGGAGTTAAGAATAACAA
1 AGATTGACTTCTCTTCACGAGGGAGTCAAGAATAACAA
* * * *
1477399 AGATTGATTTCTCTTCACAAGGAAGTCAATAATAACATTGAA
1 AGATTGACTTCTCTTCACGAGGGAGTCAAGAATAAC----AA
* *** * *
1477441 AGATTGACTCCTCTTTGTGAGGAAGTCAGGAATAACAA
1 AGATTGACTTCTCTTCACGAGGGAGTCAAGAATAACAA
1477479 AGATTGACTTCTCTTCAC-A-GGAGTCAAGAATAAC-A
1 AGATTGACTTCTCTTCACGAGGGAGTCAAGAATAACAA
*
1477514 A-ATTGA---CTCTTCATGA-GGAGTC-A-AATAACAA
1 AGATTGACTTCTCTTCACGAGGGAGTCAAGAATAACAA
* *
1477545 AGATT-AC-TCTCTT--TGA-GGAGT-TAGAATAACAA
1 AGATTGACTTCTCTTCACGAGGGAGTCAAGAATAACAA
* *
1477577 AGATTGACTTCTCTTCAC-AGGAAGTTAAGAATAACATTGAA
1 AGATTGACTTCTCTTCACGAGGGAGTCAAGAATAAC----AA
*
1477618 AGA-TGAC-TC-CTTCACGA--GAGTCAGGAATAACAA
1 AGATTGACTTCTCTTCACGAGGGAGTCAAGAATAACAA
* *
1477651 AGATTGACTTCTCCTCACGAGGAAGTCAAGAATAACAA
1 AGATTGACTTCTCTTCACGAGGGAGTCAAGAATAACAA
* * * * *
1477689 AGATCGACTTCTATTCACGAGGAAGTCGATAATAACATTGAA
1 AGATTGACTTCTCTTCACGAGGGAGTCAAGAATAAC----AA
* ** * *
1477731 ATATTGACACCTCTTAATGA--GAGTC-AG-ATAA-AA
1 AGATTGACTTCTCTTCACGAGGGAGTCAAGAATAACAA
* *
1477764 AGATTGACTTCTC-TCACGA-GAAGTCAATAATAAC-A
1 AGATTGACTTCTCTTCACGAGGGAGTCAAGAATAACAA
* * *
1477799 AGA-TCACTTCTCTTCATGAGGAAGTC--GAATAACAA
1 AGATTGACTTCTCTTCACGAGGGAGTCAAGAATAACAA
*
1477834 A-A-T-A-TTCTCTT-ATGA-GGAGTC-AG-ATAA-AA
1 AGATTGACTTCTCTTCACGAGGGAGTCAAGAATAACAA
* * * * *
1477863 AGATCGACTTCTCTTTAC-A-GAAGTCAATAATAAAATTGAA
1 AGATTGACTTCTCTTCACGAGGGAGTCAAGAAT--AA--CAA
* *
1477903 ATATTGA-TTCCTCTTAACGA-GGAGTCAAGAATAACAA
1 AGATTGACTT-CTCTTCACGAGGGAGTCAAGAATAACAA
* * * *
1477940 AGATTGATTTCTCTTCATGAGGAATTCAAGAATAACAA
1 AGATTGACTTCTCTTCACGAGGGAGTCAAGAATAACAA
**
1477978 AGATCAACTTCTCT
1 AGATTGACTTCTCT
1477992 AGGGAAATTA
Statistics
Matches: 529, Mismatches: 85, Indels: 123
0.72 0.12 0.17
Matches are distributed among these distances:
29 3 0.01
30 16 0.03
31 25 0.05
32 35 0.07
33 42 0.08
34 34 0.06
35 22 0.04
36 30 0.06
37 38 0.07
38 131 0.25
39 8 0.02
40 22 0.04
41 17 0.03
42 103 0.19
43 2 0.00
46 1 0.00
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (38 bp):
AGATTGACTTCTCTTCACGAGGGAGTCAAGAATAACAA
Found at i:1477435 original size:80 final size:79
Alignment explanation
Indices: 1477277--1477798 Score: 337
Period size: 80 Copynumber: 6.9 Consensus size: 79
1477267 CACTAATGAG
* ** * * * *
1477277 AGATTGACTTCTCTTCATAAGAAAATCAAGAATAACATTGAACGATTGGCTCCTCTTCACGAAGG
1 AGATTGACTACTCTTCACGAGGAAGTCAAGAATAACA---AA-GATTGACTTCTCTTCAC-AAGG
1477342 AGTCAAGAATAACATTGAA
61 AGTCAAGAATAACATTGAA
* * *
1477361 AGATTGACTACTCTTCACGAGGGAGTTAAGAATAACAAAGATTGATTTCTCTTCACAAGGAAGTC
1 AGATTGACTACTCTTCACGAGGAAGTCAAGAATAACAAAGATTGACTTCTCTTCACAAGG-AGTC
*
1477426 AATAATAACATTGAA
65 AAGAATAACATTGAA
* *** *
1477441 AGATTGACTCCTCTTTGTGAGGAAGTCAGGAATAACAAAGATTGACTTCTCTTCAC-AGGAGTCA
1 AGATTGACTACTCTTCACGAGGAAGTCAAGAATAACAAAGATTGACTTCTCTTCACAAGGAGTCA
1477505 AGAATAAC-----A
66 AGAATAACATTGAA
* ** *
1477514 A-ATTG---ACTCTTCATGAGG-AGTCAA--ATAACAAAGATT-AC-TCTCTT--TGAGGAGT-T
1 AGATTGACTACTCTTCACGAGGAAGTCAAGAATAACAAAGATTGACTTCTCTTCACAAGGAGTCA
1477567 AGAATAAC----AA
66 AGAATAACATTGAA
* * *
1477577 AGATTGACTTCTCTTCAC-AGGAAGTTAAGAATAACATTGAAAGA-TGAC-TC-CTTCACGA-GA
1 AGATTGACTACTCTTCACGAGGAAGTCAAGAATAAC----AAAGATTGACTTCTCTTCACAAGGA
*
1477637 GTCAGGAATAAC----AA
62 GTCAAGAATAACATTGAA
* * * * *
1477651 AGATTGACTTCTCCTCACGAGGAAGTCAAGAATAACAAAGATCGACTTCTATTCACGAGGAAGTC
1 AGATTGACTACTCTTCACGAGGAAGTCAAGAATAACAAAGATTGACTTCTCTTCACAAGG-AGTC
* *
1477716 GATAATAACATTGAA
65 AAGAATAACATTGAA
* * * * *
1477731 ATATTGAC-ACCTCTTAATGA-G-AGTC-AG-ATAA-AAAGATTGACTTCTC-TCACGAGAAGTC
1 AGATTGACTA-CTCTTCACGAGGAAGTCAAGAATAACAAAGATTGACTTCTCTTCACAAGGAGTC
*
1477789 AATAATAACA
65 AAGAATAACA
1477799 AGATCACTTC
Statistics
Matches: 361, Mismatches: 48, Indels: 69
0.76 0.10 0.14
Matches are distributed among these distances:
62 8 0.02
63 8 0.02
64 10 0.03
65 2 0.01
66 15 0.04
67 12 0.03
68 5 0.01
69 15 0.04
71 5 0.01
72 11 0.03
73 30 0.08
74 42 0.12
75 30 0.08
76 14 0.04
77 2 0.01
78 16 0.04
79 8 0.02
80 96 0.27
81 2 0.01
84 30 0.08
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.26
Consensus pattern (79 bp):
AGATTGACTACTCTTCACGAGGAAGTCAAGAATAACAAAGATTGACTTCTCTTCACAAGGAGTCA
AGAATAACATTGAA
Found at i:1477452 original size:122 final size:116
Alignment explanation
Indices: 1477277--1477725 Score: 297
Period size: 122 Copynumber: 4.0 Consensus size: 116
1477267 CACTAATGAG
* * *
1477277 AGATTGACTTCTCTTCATAAGAAAATCAAGAATAACATTGAACGATTGGCTCCTCTTCACGAAGG
1 AGATTGACTTCTCTTCACAAGAAAATCAAGAATAACATTGAAAGATTGACTCCTCTTCACG-AGG
*
1477342 -AGTCAAGAATAACATTGAAAGATTGACTACTCTTCACGAGGGAGTTAAGAATAACAA
65 AAGTCAAGAATAAC----AAAGATTGACTACTCTTCAC-A-GGAGTCAAGAATAACAA
* * * * ***
1477399 AGATTGATTTCTCTTCACAAGGAAGTCAATAATAACATTGAAAGATTGACTCCTCTTTGTGAGGA
1 AGATTGACTTCTCTTCACAAGAAAATCAAGAATAACATTGAAAGATTGACTCCTCTTCACGAGGA
* *
1477464 AGTCAGGAATAACAAAGATTGACTTCTCTTCACAGGAGTCAAGAATAAC-A
66 AGTCAAGAATAACAAAGATTGACTACTCTTCACAGGAGTCAAGAATAACAA
** * * *
1477514 A-ATTGA---CTCTTCATGAG-GAGTC-A-AATAAC----AAAGATT-ACT-CTCTT--TGAGG-
1 AGATTGACTTCTCTTCACAAGAAAATCAAGAATAACATTGAAAGATTGACTCCTCTTCACGAGGA
* * *
1477563 AGT-TAGAATAACAAAGATTGACTTCTCTTCACAGGAAGTTAAGAATAACATTGAA
66 AGTCAAGAATAACAAAGATTGACTACTCTTCACAGG-AGTCAAGAATAAC----AA
* * * * *
1477618 AGA-TGAC-TC-CTTCAC--GAGAGTCAGGAATAAC----AAAGATTGACTTCTCCTCACGAGGA
1 AGATTGACTTCTCTTCACAAGAAAATCAAGAATAACATTGAAAGATTGACTCCTCTTCACGAGGA
* * * * *
1477674 AGTCAAGAATAACAAAGATCGACTTCTATTCACGAGGAAGTCGATAATAACA
66 AGTCAAGAATAACAAAGATTGACTACTCTTCAC-AGG-AGTCAAGAATAACA
1477726 TTGAAATATT
Statistics
Matches: 278, Mismatches: 29, Indels: 53
0.77 0.08 0.15
Matches are distributed among these distances:
98 30 0.11
99 15 0.05
100 5 0.02
102 5 0.02
103 4 0.01
104 17 0.06
105 6 0.02
106 14 0.05
107 3 0.01
108 10 0.04
109 2 0.01
110 8 0.03
111 12 0.04
112 26 0.09
113 14 0.05
114 5 0.02
115 2 0.01
116 14 0.05
117 1 0.00
118 19 0.07
121 3 0.01
122 63 0.23
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.26
Consensus pattern (116 bp):
AGATTGACTTCTCTTCACAAGAAAATCAAGAATAACATTGAAAGATTGACTCCTCTTCACGAGGA
AGTCAAGAATAACAAAGATTGACTACTCTTCACAGGAGTCAAGAATAACAA
Found at i:1477686 original size:290 final size:288
Alignment explanation
Indices: 1477277--1477989 Score: 852
Period size: 290 Copynumber: 2.4 Consensus size: 288
1477267 CACTAATGAG
* * * * *
1477277 AGATTGACTTCTCTTCATAAGAAAATCAAGAATAACATTGAACGATTGGCTCCTCTTCACGAAGG
1 AGATTGACTTCTCTTCA-CAGGAAGTCAAGAATAACATTGAAAGATTGACTCCTCTTCACG-AGG
* * * * *
1477342 AGTCAAGAATAACATTGAAAGATTGACTACTCTTCACGAGGGAGTTAAGAATAACAAAGATTGAT
64 AGTCAAGAATAAC----AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAGATCGAC
* * **
1477407 TTCTCTTCACAAGGAAGTCAATAATAACATTGAAAGATTGACTCCTCTTTGTGAGGAAGTCAGGA
125 TTCTATTCACAAGGAAGTCAATAATAACATTGAAAGATTGACACCTCTTAATGA-G-AGTCA-G-
*
1477472 ATAACAAAGATTGACTTCTCTTCAC-AGGAGTCAAGAATAACAA-AT-TGACTCTTCATGAGG-A
186 ATAA-AAAGATTGACTTCTC-TCACGAGAAGTCAAGAATAACAAGATCT-ACTCTTCATGAGGAA
*
1477533 GTCAAATAACAAAGATTACTCTCTT-TGAGGAGTTAGAATAACAA
248 GTCAAATAACAAA-A-TACTCTCTTATGAGGAGTCAG-ATAA-AA
*
1477577 AGATTGACTTCTCTTCACAGGAAGTTAAGAATAACATTGAAAGA-TGACT-C-CTTCACGA-GAG
1 AGATTGACTTCTCTTCACAGGAAGTCAAGAATAACATTGAAAGATTGACTCCTCTTCACGAGGAG
* *
1477638 TCAGGAATAACAAAGATTGACTTCTCCTCACGAGGAAGTCAAGAATAACAAAGATCGACTTCTAT
66 TCAAGAATAACAAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAGATCGACTTCTAT
* * *
1477703 TCACGAGGAAGTCGATAATAACATTGAAATATTGACACCTCTTAATGAGAGTCAGATAAAAAGAT
131 TCACAAGGAAGTCAATAATAACATTGAAAGATTGACACCTCTTAATGAGAGTCAGATAAAAAGAT
* * *
1477768 TGACTTCTCTCACGAGAAGTCAATAATAACAAGATCACTTCTCTTCATGAGGAAGTCGAATAACA
196 TGACTTCTCTCACGAGAAGTCAAGAATAACAAGAT--CTACTCTTCATGAGGAAGTCAAATAACA
*
1477833 AAATATTCTCTTATGAGGAGTCAGATAAAA
259 AAATACTCTCTTATGAGGAGTCAGATAAAA
* * * * * * *
1477863 AGATCGACTTCTCTTTACA-GAAGTCAATAATAAAATTGAAATATTGATTCCTCTTAACGAGGAG
1 AGATTGACTTCTCTTCACAGGAAGTCAAGAATAACATTGAAAGATTGACTCCTCTTCACGAGGAG
* * * *
1477927 TCAAGAATAACAAAGATTGATTTCTCTTCATGAGGAATTCAAGAATAACAAAGATCAACTTCT
66 TCAAGAATAACAAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAGATCGACTTCT
1477990 CTAGGGAAAT
Statistics
Matches: 362, Mismatches: 40, Indels: 33
0.83 0.09 0.08
Matches are distributed among these distances:
284 4 0.01
285 51 0.14
286 29 0.08
287 14 0.04
288 35 0.10
289 75 0.21
290 89 0.25
294 13 0.04
295 1 0.00
296 7 0.02
297 1 0.00
298 4 0.01
299 22 0.06
300 17 0.05
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (288 bp):
AGATTGACTTCTCTTCACAGGAAGTCAAGAATAACATTGAAAGATTGACTCCTCTTCACGAGGAG
TCAAGAATAACAAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAGATCGACTTCTAT
TCACAAGGAAGTCAATAATAACATTGAAAGATTGACACCTCTTAATGAGAGTCAGATAAAAAGAT
TGACTTCTCTCACGAGAAGTCAAGAATAACAAGATCTACTCTTCATGAGGAAGTCAAATAACAAA
ATACTCTCTTATGAGGAGTCAGATAAAA
Found at i:1477767 original size:113 final size:108
Alignment explanation
Indices: 1477462--1477895 Score: 348
Period size: 99 Copynumber: 4.1 Consensus size: 108
1477452 TCTTTGTGAG
* * *
1477462 GAAGTCAGGAATAACAAAGATTGACTTCTCTTCAC-AGG-AGTCAAGAATAAC-----AA-ATTG
1 GAAGTCAAGAATAACAAAGATCGACTTCTCTTCACGAGGAAGTCGA-AATAACATTGAAATATTG
* **
1477519 A-CTCTTCATGAGGAGTCAAATAACAAAGATT-AC-TCT-CT-TTGA
65 ACCTCTT-ATGA-GAGTCAGATAA-AAAGATTGACTTCTCCTCACGA
* * * ** *
1477561 GGAGT-TAGAATAACAAAGATTGACTTCTCTTCAC-AGGAAGTTAAGAATAACATTGAAAGA-TG
1 GAAGTCAAGAATAACAAAGATCGACTTCTCTTCACGAGGAAGTCGA-AATAACATTGAAATATTG
*
1477623 A-CTCCTTCACGAGAGTCAGGAATAACAAAGATTGACTTCTCCTCACGA
65 ACCT-CTT-ATGAGAGTCA-G-ATAA-AAAGATTGACTTCTCCTCACGA
*
1477671 GGAAGTCAAGAATAACAAAGATCGACTTCTATTCACGAGGAAGTCGATAATAACATTGAAATATT
1 -GAAGTCAAGAATAACAAAGATCGACTTCTCTTCACGAGGAAGTCGA-AATAACATTGAAATATT
1477736 GACACCTCTTAATGAGAGTCAGATAAAAAGATTGACTTCT-CTCACGA
64 G--ACCTCTT-ATGAGAGTCAGATAAAAAGATTGACTTCTCCTCACGA
* *
1477783 GAAGTCAATAATAAC-AAGATC-ACTTCTCTTCATGAGGAAGTCG-AATAACA---AAATATT--
1 GAAGTCAAGAATAACAAAGATCGACTTCTCTTCACGAGGAAGTCGAAATAACATTGAAATATTGA
* * *
1477840 -CTCTTATGAGGAGTCAGATAAAAAGATCGACTTCTCTTTAC-A
66 CCTCTTATGA-GAGTCAGATAAAAAGATTGACTTCTCCTCACGA
*
1477882 GAAGTCAATAATAA
1 GAAGTCAAGAATAA
1477896 AATTGAAATA
Statistics
Matches: 288, Mismatches: 24, Indels: 46
0.80 0.07 0.13
Matches are distributed among these distances:
98 34 0.12
99 60 0.21
100 3 0.01
104 20 0.07
105 8 0.03
106 12 0.04
107 9 0.03
108 3 0.01
109 22 0.08
110 8 0.03
111 18 0.06
112 33 0.11
113 36 0.12
114 6 0.02
115 1 0.00
116 13 0.05
117 2 0.01
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (108 bp):
GAAGTCAAGAATAACAAAGATCGACTTCTCTTCACGAGGAAGTCGAAATAACATTGAAATATTGA
CCTCTTATGAGAGTCAGATAAAAAGATTGACTTCTCCTCACGA
Found at i:1477808 original size:34 final size:35
Alignment explanation
Indices: 1477770--1477895 Score: 101
Period size: 34 Copynumber: 3.8 Consensus size: 35
1477760 AAAAAGATTG
1477770 ACTTCTC-TCACGAGAAGTCAATAATAACAAGATC
1 ACTTCTCTTCACGAGAAGTCAATAATAACAAGATC
* * *
1477804 ACTTCTCTTCATGAGGAAGTC--GAATAACAAAAT-
1 ACTTCTCTTCACGA-GAAGTCAATAATAACAAGATC
* *
1477837 A-TTCTCTT-ATGAGGAGTCAGAT-A-AA-AAGATC
1 ACTTCTCTTCACGAGAAGTCA-ATAATAACAAGATC
*
1477868 GACTTCTCTTTAC-AGAAGTCAATAATAA
1 -ACTTCTCTTCACGAGAAGTCAATAATAA
1477896 AATTGAAATA
Statistics
Matches: 73, Mismatches: 8, Indels: 22
0.71 0.08 0.21
Matches are distributed among these distances:
30 9 0.12
31 6 0.08
32 11 0.15
33 16 0.22
34 20 0.27
35 5 0.07
36 6 0.08
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (35 bp):
ACTTCTCTTCACGAGAAGTCAATAATAACAAGATC
Found at i:1478843 original size:257 final size:257
Alignment explanation
Indices: 1478339--1479113 Score: 915
Period size: 257 Copynumber: 3.0 Consensus size: 257
1478329 ATCTGATAGT
* * *
1478339 CCAATTTGGGAAATAGTTTACTA-GTAAGAAACTTTGGAAATCATTTTCTTACTTTTCAATAATT
1 CCAATTTGGGAAATAATTTACTAGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATT
* * * **
1478403 TAATTTTCTGAAAACACTAAATAAGGAACTTTAAAAATCGTTTTCTCATTTTTTTTCAAAAATCA
66 TAATTTTCTGAAAACACTAAATGAGAAACTTTAAAAATCGCTTTCTCA---TTTTTC-AATTTCA
* * ** * *
1478468 -AGTGAAAACATCATGT-C-CGAAGGTCTTATAGATGGTTCGAATGACTTAACATCTTACTCGAA
127 TA-TGAAAACATC-TCTACTCGAAGGTC-TACAGATGGCCCGAAGGACTTATCATCTTACTCGAA
* *
1478530 AGA-TTGACTGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAAG
189 AGACTT-ACAGATGACTCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAAG
1478594 ACTTA
253 ACTTA
* *
1478599 CCAATTTTGGAAATAATTTACTAGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATT
1 CCAATTTGGGAAATAATTTACTAGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATT
* * * * ** *
1478664 TTATTATCTGAAAATACTATATGAGAAACTTTGGAAATTGCTTTCTCATTTTTCAATTTCATATG
66 TAATTTTCTGAAAACACTAAATGAGAAACTTTAAAAATCGCTTTCTCATTTTTCAATTTCATATG
* **
1478729 AAAATATCT-TACTCGAAGGTCTCACAGATGGCCCGAAGGACTTATCATCTCGCTCGAAAGACTT
131 AAAACATCTCTACTCGAAGGTCT-ACAGATGGCCCGAAGGACTTATCATCTTACTCGAAAGACTT
* * * * *
1478793 ACAGGTGACTCGAAGGATTTAATCATCATGCTCGAGAGACTTAGTGATGGCCAGAATGACTTA
195 ACAGATGACTCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAAGACTTA
* * * *
1478856 GCAATTTGGGAAATAATTTACTGGGTAAGAAACTTTGGAAATTACCTTCTTACTTTTCAAAAATT
1 CCAATTTGGGAAATAATTTACTAGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATT
* * * *
1478921 TCATTTTCT-AAAAGCATTAAATGAGAAACTTTAAAAATCGCTTTCTCTTTTTTCACATTT-ATG
66 TAATTTTCTGAAAA-CACTAAATGAGAAACTTTAAAAATCGCTTTCTCATTTTTCA-ATTTCATA
** * * *
1478984 TGAAAACAT-TCTACCTTAAAGTGT-TACGGATAGCCCGAAGGACTTATCATCTTAATCGAAAGA
129 TGAAAACATCTCTA-CTCGAAG-GTCTACAGATGGCCCGAAGGACTTATCATCTTACTCGAAAGA
* *
1479047 CTGACAGATGA-TCTGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACT
192 CTTACAGATGACTC-GAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAAGACT
1479111 TA
256 TA
1479113 C
1 C
1479114 TAAGTAATAA
Statistics
Matches: 440, Mismatches: 63, Indels: 27
0.83 0.12 0.05
Matches are distributed among these distances:
255 1 0.00
256 10 0.02
257 311 0.71
258 19 0.04
259 2 0.00
260 21 0.05
261 76 0.17
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (257 bp):
CCAATTTGGGAAATAATTTACTAGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATT
TAATTTTCTGAAAACACTAAATGAGAAACTTTAAAAATCGCTTTCTCATTTTTCAATTTCATATG
AAAACATCTCTACTCGAAGGTCTACAGATGGCCCGAAGGACTTATCATCTTACTCGAAAGACTTA
CAGATGACTCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAAGACTTA
Found at i:1479107 original size:42 final size:41
Alignment explanation
Indices: 1479007--1479112 Score: 104
Period size: 42 Copynumber: 2.6 Consensus size: 41
1478997 CCTTAAAGTG
* * *
1479007 TTACGGATAGCCCGAAGGACTTATCATCTTAATCGAAAGAC
1 TTACAGATGGCCCGAAGGACTTATCATCATAATCGAAAGAC
* ** * * **
1479048 TGACAGATGATCTGAAGGATTTAATCATCATGCTCGAAAGAC
1 TTACAGATGGCCCGAAGGACTT-ATCATCATAATCGAAAGAC
*
1479090 TTACTGATGGCCCGAAGGACTTA
1 TTACAGATGGCCCGAAGGACTTA
1479113 CTAAGTAATA
Statistics
Matches: 48, Mismatches: 16, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
41 16 0.33
42 32 0.67
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (41 bp):
TTACAGATGGCCCGAAGGACTTATCATCATAATCGAAAGAC
Found at i:1480584 original size:16 final size:15
Alignment explanation
Indices: 1480563--1480678 Score: 87
Period size: 14 Copynumber: 7.5 Consensus size: 15
1480553 TTTGATTTAT
1480563 TTTTTTCTCATTTTTC
1 TTTTTTCTC-TTTTTC
*
1480579 TTTTTTCTTCTTCTCTC
1 TTTTTTC-TCTT-TTTC
*
1480596 TTTTTAT-TCTTCTTC
1 TTTTT-TCTCTTTTTC
*
1480611 -TTTTTCTATTTTTC
1 TTTTTTCTCTTTTTC
*
1480625 TTTTTTCTTCTTCTCTC
1 TTTTTTC-TCTT-TTTC
*
1480642 TTTTTAT-TCTTCTT-
1 TTTTT-TCTCTTTTTC
*
1480656 TTTTTTCTATTTTTC
1 TTTTTTCTCTTTTTC
1480671 TTTTTTCT
1 TTTTTTCT
1480679 TCCTTTTTTC
Statistics
Matches: 79, Mismatches: 11, Indels: 21
0.71 0.10 0.19
Matches are distributed among these distances:
13 2 0.03
14 20 0.25
15 17 0.22
16 20 0.25
17 18 0.23
18 2 0.03
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTTTCTCTTTTTC
Found at i:1480632 original size:46 final size:46
Alignment explanation
Indices: 1480564--1480680 Score: 216
Period size: 46 Copynumber: 2.5 Consensus size: 46
1480554 TTGATTTATT
1480564 TTTTTCTCATTTTTCTTTTTTCTTCTTCTCTCTTTTTATTCTTCTTC
1 TTTTTCT-ATTTTTCTTTTTTCTTCTTCTCTCTTTTTATTCTTCTTC
*
1480611 TTTTTCTATTTTTCTTTTTTCTTCTTCTCTCTTTTTATTCTTCTTT
1 TTTTTCTATTTTTCTTTTTTCTTCTTCTCTCTTTTTATTCTTCTTC
1480657 TTTTTCTATTTTTCTTTTTTCTTC
1 TTTTTCTATTTTTCTTTTTTCTTC
1480681 CTTTTTTCAC
Statistics
Matches: 69, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
46 62 0.90
47 7 0.10
ACGTcount: A:0.04, C:0.21, G:0.00, T:0.75
Consensus pattern (46 bp):
TTTTTCTATTTTTCTTTTTTCTTCTTCTCTCTTTTTATTCTTCTTC
Found at i:1480636 original size:30 final size:28
Alignment explanation
Indices: 1480589--1480663 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 28
1480579 TTTTTTCTTC
*
1480589 TTCTCTCTTTTTATTCTTCT-TCTTTTTCTA
1 TTCT-TCTTTTTTTTCTTCTCTC-TTTT-TA
*
1480619 TTTTTCTTTTTTCTTCTTCTCTCTTTTTA
1 TTCTTCTTTTTT-TTCTTCTCTCTTTTTA
1480648 TTCTTCTTTTTTTTCT
1 TTCTTCTTTTTTTTCT
1480664 ATTTTTCTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
28 4 0.10
29 20 0.50
30 14 0.35
31 2 0.05
ACGTcount: A:0.04, C:0.21, G:0.00, T:0.75
Consensus pattern (28 bp):
TTCTTCTTTTTTTTCTTCTCTCTTTTTA
Found at i:1480685 original size:17 final size:17
Alignment explanation
Indices: 1480563--1480686 Score: 58
Period size: 17 Copynumber: 6.9 Consensus size: 17
1480553 TTTGATTTAT
*
1480563 TTTTTTC-TCATTTTTC
1 TTTTTTCTTCCTTTTTC
*
1480579 TTTTTTCTT-CTTCTCTC
1 TTTTTTCTTCCTT-TTTC
1480596 TTTTTATTCTTCTTCTTTTTC
1 -TTTT-TTCTTC--CTTTTTC
*
1480617 TATTTTTCTT-TTTTCTTC
1 T-TTTTTCTTCCTTT-TTC
* * **
1480635 TTCTCTCTTTTTATTCTTC
1 TTTTTTCTTCCT-TT-TTC
*
1480654 TTTTTT-TTCTATTTTTC
1 TTTTTTCTTC-CTTTTTC
1480671 TTTTTTCTTCCTTTTT
1 TTTTTTCTTCCTTTTT
1480687 TCACTCTCCT
Statistics
Matches: 84, Mismatches: 11, Indels: 25
0.70 0.09 0.21
Matches are distributed among these distances:
16 9 0.11
17 27 0.32
18 17 0.20
19 16 0.19
20 6 0.07
21 6 0.07
22 3 0.04
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTTTCTTCCTTTTTC
Found at i:1480708 original size:43 final size:45
Alignment explanation
Indices: 1480565--1480713 Score: 164
Period size: 46 Copynumber: 3.3 Consensus size: 45
1480555 TGATTTATTT
*
1480565 TTTTCTC-ATTTTTCTTTTTTCTTCTTCTCTCTTTTTATTCTTCTTC
1 TTTTCTCTATTTTTCTTTTTTCTTC-TCTCTCTTTTTATTC-TCCTC
* *
1480611 TTTT-TCTATTTTTCTTTTTTCTTCTTCTCTCTTTTTATTCTTCTT
1 TTTTCTCTATTTTTCTTTTTTCTTC-TCTCTCTTTTTATTCTCCTC
* * *
1480656 TTTTTTCTATTTTTCTTTTTTCTTC-CT-T-TTTTCACTCTCCTC
1 TTTTCTCTATTTTTCTTTTTTCTTCTCTCTCTTTTTATTCTCCTC
1480698 TTTATCTCTATATTTT
1 TTT-TCTCTAT-TTTT
1480714 TATGAATTTA
Statistics
Matches: 91, Mismatches: 8, Indels: 10
0.83 0.07 0.09
Matches are distributed among these distances:
42 13 0.14
43 7 0.08
44 6 0.07
45 8 0.09
46 57 0.63
ACGTcount: A:0.06, C:0.22, G:0.00, T:0.72
Consensus pattern (45 bp):
TTTTCTCTATTTTTCTTTTTTCTTCTCTCTCTTTTTATTCTCCTC
Found at i:1482244 original size:20 final size:20
Alignment explanation
Indices: 1482216--1482255 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
1482206 AAAATACAGA
* *
1482216 AATGGAAATGTAAAAGGTGT
1 AATGCAAATGCAAAAGGTGT
*
1482236 AATGCAAATGCAAGAGGTGT
1 AATGCAAATGCAAAAGGTGT
1482256 CATTTCTGAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.05, G:0.30, T:0.23
Consensus pattern (20 bp):
AATGCAAATGCAAAAGGTGT
Found at i:1485367 original size:14 final size:15
Alignment explanation
Indices: 1485336--1485367 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
1485326 AATACCTTTT
1485336 AAAATAATTTTAAGA
1 AAAATAATTTTAAGA
1485351 AAAATAATTTTAA-A
1 AAAATAATTTTAAGA
1485365 AAA
1 AAA
1485368 CTAAAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (15 bp):
AAAATAATTTTAAGA
Found at i:1486965 original size:5 final size:5
Alignment explanation
Indices: 1486955--1486987 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
1486945 CAAATATATA
1486955 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1486988 AAGTTAGTCG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:1486980 original size:9 final size:9
Alignment explanation
Indices: 1486956--1486986 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
1486946 AAATATATAA
1486956 AAATAAAAT
1 AAATAAAAT
1486965 AAAATAAAAT
1 -AAATAAAAT
1486975 AAATAAAAT
1 AAATAAAAT
1486984 AAA
1 AAA
1486987 AAAGTTAGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:1486980 original size:14 final size:15
Alignment explanation
Indices: 1486955--1486987 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
1486945 CAAATATATA
1486955 AAAATAAAATAAAAT
1 AAAATAAAATAAAAT
1486970 AAAAT-AAATAAAAT
1 AAAATAAAATAAAAT
1486984 AAAA
1 AAAA
1486988 AAGTTAGTCG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (15 bp):
AAAATAAAATAAAAT
Found at i:1487049 original size:130 final size:128
Alignment explanation
Indices: 1486862--1487433 Score: 652
Period size: 113 Copynumber: 4.6 Consensus size: 128
1486852 AGTTAGCGGC
* * * * **
1486862 TAGTGGTTAGCAGAGTCCGGACCATAATAATGTGGATCTTACCCCGGATCGGATCACCAAAACAT
1 TAGTGGTTAGCAGAGTCTGAACCATAATAATGTGGATCTTACCCCGGATCGGGTCACCACAAGGT
*
1486927 CGAATCAAATAATGCAAACAAATATATAAAAATAAAATAAAATAAAATAAATAAAATAAAAAAGT
66 CGAATCGAATAATGCAAACAAA-ATAT-AAAATAAAATAAAATAAAATAAATAAAATAAAAAAGT
* *
1486992 TAGTCGTTAGCAGAGT-TCGAACCATAATGATGTGGATCTTACCCCGGATCGGGTCACCACAAGG
1 TAGTGGTTAGCAGAGTCT-GAACCATAATAATGTGGATCTTACCCCGGATCGGGTCACCACAAGG
1487056 TCGAATCGAATAATGCAAAC-AAATAT---AT---A-AAAATAAAATAAATAAAATAAAAAAGT
65 TCGAATCGAATAATGCAAACAAAATATAAAATAAAATAAAATAAAATAAATAAAATAAAAAAGT
* * *
1487112 TAGTGGTTGGCAGAGTCTGAACCATAATAATGTGGATCTTACCCCCGGATCGGGTCTCTACAAGG
1 TAGTGGTTAGCAGAGTCTGAACCATAATAATGTGGATCTTA-CCCCGGATCGGGTCACCACAAGG
* * * *
1487177 TCAAATCGAATAATGCAAATAAATATATAAAAAAATAAAATAAAATAACATAAATAAAATTAAAA
65 TCGAATCGAATAATGCAAACAAA-ATAT---AAAATAAAATAAAATAAAATAAATAAAATAAAAA
1487242 AGT
126 AGT
* * *
1487245 TAGTGGTTAGCAGAGTCTGAACAATAATAATGTGGATCTTACCCCGGATCGAGTCACCATAAGGT
1 TAGTGGTTAGCAGAGTCTGAACCATAATAATGTGGATCTTACCCCGGATCGGGTCACCACAAGGT
* *
1487310 CGAGTCGAATAATG----C------GAAAATAAAATAAAAT---A-AAAT-AAATAAAAAAGT
66 CGAATCGAATAATGCAAACAAAATATAAAATAAAATAAAATAAAATAAATAAAATAAAAAAGT
* ** * * *
1487358 TAATGGTTAGCAGAGTCCAAACCATAATAATGTTGATCTTACCCCAGATCGAGTCACCACAAGGT
1 TAGTGGTTAGCAGAGTCTGAACCATAATAATGTGGATCTTACCCCGGATCGGGTCACCACAAGGT
*
1487423 CGAGTCGAATA
66 CGAATCGAATA
1487434 TAAGAAACAA
Statistics
Matches: 391, Mismatches: 36, Indels: 47
0.82 0.08 0.10
Matches are distributed among these distances:
113 80 0.20
114 4 0.01
115 1 0.00
118 15 0.04
120 63 0.16
121 41 0.10
122 2 0.01
123 4 0.01
124 2 0.01
128 4 0.01
129 4 0.01
130 74 0.19
132 33 0.08
133 64 0.16
ACGTcount: A:0.45, C:0.15, G:0.17, T:0.23
Consensus pattern (128 bp):
TAGTGGTTAGCAGAGTCTGAACCATAATAATGTGGATCTTACCCCGGATCGGGTCACCACAAGGT
CGAATCGAATAATGCAAACAAAATATAAAATAAAATAAAATAAAATAAATAAAATAAAAAAGT
Found at i:1487231 original size:133 final size:131
Alignment explanation
Indices: 1487076--1487353 Score: 389
Period size: 133 Copynumber: 2.1 Consensus size: 131
1487066 TAATGCAAAC
* * *
1487076 AAATATATAAAAATAAAATAAATAAAATAAAAAAGTTAGTGGTTGGCAGAGTCTGAACCATAATA
1 AAATAAAT-AAAATAAAATAAATAAAATAAAAAAGTTAGTGGTTAGCAGAGTCTGAACAATAATA
* * *
1487141 ATGTGGATCTTACCCCCGGATCGGGTCTCTACAAGGTCAAATCGAATAATGC-AAATAAATATAT
65 ATGTGGATCTTA-CCCCGGATCGAGTCACCACAAGGTCAAATCGAATAATGCAAAATAAA-ATA-
1487205 AAA-A
127 AAATA
* *
1487209 AAATAAAATAAAATAACATAAATAAAATTAAAAAGTTAGTGGTTAGCAGAGTCTGAACAATAATA
1 AAAT-AAATAAAATAAAATAAATAAAATAAAAAAGTTAGTGGTTAGCAGAGTCTGAACAATAATA
* * *
1487274 ATGTGGATCTTACCCCGGATCGAGTCACCATAAGGTCGAGTCGAATAATGCGAAAATAAAATAAA
65 ATGTGGATCTTACCCCGGATCGAGTCACCACAAGGTCAAATCGAATAATGC-AAAATAAAATAAA
1487339 ATA
129 ATA
1487342 AAATAAATAAAA
1 AAATAAATAAAA
1487354 AAGTTAATGG
Statistics
Matches: 130, Mismatches: 11, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
132 44 0.34
133 76 0.58
134 10 0.08
ACGTcount: A:0.49, C:0.12, G:0.15, T:0.24
Consensus pattern (131 bp):
AAATAAATAAAATAAAATAAATAAAATAAAAAAGTTAGTGGTTAGCAGAGTCTGAACAATAATAA
TGTGGATCTTACCCCGGATCGAGTCACCACAAGGTCAAATCGAATAATGCAAAATAAAATAAAAT
A
Found at i:1487311 original size:253 final size:243
Alignment explanation
Indices: 1486862--1487433 Score: 779
Period size: 253 Copynumber: 2.3 Consensus size: 243
1486852 AGTTAGCGGC
* * * **
1486862 TAGTGGTTAGCAGAGTCCGGACCATAATAATGTGGATCTTACCCCGGATCGGATCACCAAAACAT
1 TAGTGGTTAGCAGAGTCCGAACCATAATAATGTGGATCTTACCCCGGATCGGGTCACCACAAGGT
*
1486927 CGAATCAAATAATGCAAACAAATATATAAAAATAAAATAAAATAAAATAAATAAAATAAAAAAGT
66 CGAATCGAATAATGCAAACAAATATATAAAAATAAAATAAAATAAAATAAATAAAATAAAAAAGT
* * *
1486992 TAGTCGTTAGCAGAGTTCGAACCATAATGATGTGGATCTTACCCCGGATCGGGTCACCACAAGGT
131 TAGTCGTTAGCAGAGTTCGAACAATAATAATGTGGATCTTACCCCGGATCGAGTCACCACAAGGT
1487057 CGAATCGAATAATGCAAACAAATATATAAAAATAAAAT-AAATAAAATAAAAAAGT
196 CGAATCGAATAATG----CAAA-A-AT-AAAATAAAATAAAAT-AAATAAAAAAGT
* * * *
1487112 TAGTGGTTGGCAGAGTCTGAACCATAATAATGTGGATCTTACCCCCGGATCGGGTCTCTACAAGG
1 TAGTGGTTAGCAGAGTCCGAACCATAATAATGTGGATCTTA-CCCCGGATCGGGTCACCACAAGG
* * * *
1487177 TCAAATCGAATAATGCAAATAAATATATAAAAAAATAAAATAAAATAACATAAATAAAATTAAAA
65 TCGAATCGAATAATGCAAACAAATATAT--AAAAATAAAATAAAATAAAATAAATAAAATAAAAA
* *
1487242 AGTTAGTGGTTAGCAGAG-TCTGAACAATAATAATGTGGATCTTACCCCGGATCGAGTCACCATA
128 AGTTAGTCGTTAGCAGAGTTC-GAACAATAATAATGTGGATCTTACCCCGGATCGAGTCACCACA
* *
1487306 AGGTCGAGTCGAATAATGCGAAAATAAAATAAAATAAAATAAATAAAAAAGT
192 AGGTCGAATCGAATAATGCAAAAATAAAATAAAATAAAATAAATAAAAAAGT
* * * * *
1487358 TAATGGTTAGCAGAGTCCAAACCATAATAATGTTGATCTTACCCCAGATCGAGTCACCACAAGGT
1 TAGTGGTTAGCAGAGTCCGAACCATAATAATGTGGATCTTACCCCGGATCGGGTCACCACAAGGT
*
1487423 CGAGTCGAATA
66 CGAATCGAATA
1487434 TAAGAAACAA
Statistics
Matches: 285, Mismatches: 32, Indels: 15
0.86 0.10 0.05
Matches are distributed among these distances:
245 29 0.10
246 58 0.20
247 6 0.02
248 1 0.00
249 3 0.01
250 38 0.13
251 42 0.15
252 2 0.01
253 106 0.37
ACGTcount: A:0.45, C:0.15, G:0.17, T:0.23
Consensus pattern (243 bp):
TAGTGGTTAGCAGAGTCCGAACCATAATAATGTGGATCTTACCCCGGATCGGGTCACCACAAGGT
CGAATCGAATAATGCAAACAAATATATAAAAATAAAATAAAATAAAATAAATAAAATAAAAAAGT
TAGTCGTTAGCAGAGTTCGAACAATAATAATGTGGATCTTACCCCGGATCGAGTCACCACAAGGT
CGAATCGAATAATGCAAAAATAAAATAAAATAAAATAAATAAAAAAGT
Found at i:1489189 original size:19 final size:20
Alignment explanation
Indices: 1489165--1489206 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
1489155 GTGGGGATTT
*
1489165 ATAGATG-AAGAGAAATAAA
1 ATAGATGAAAGAAAAATAAA
1489184 ATAGATGAAAGAAAAATAAA
1 ATAGATGAAAGAAAAATAAA
1489204 ATA
1 ATA
1489207 TTTCAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.67, C:0.00, G:0.17, T:0.17
Consensus pattern (20 bp):
ATAGATGAAAGAAAAATAAA
Found at i:1493258 original size:24 final size:22
Alignment explanation
Indices: 1493227--1493271 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
1493217 AAATTTGATA
1493227 TAACTGTTCACTT-TGACTAAATT
1 TAACTGTT-A-TTGTGACTAAATT
1493250 TAACGTGTTATTGTGACTAAAT
1 TAAC-TGTTATTGTGACTAAAT
1493272 CATTTTGTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 2 0.10
23 14 0.70
24 4 0.20
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.42
Consensus pattern (22 bp):
TAACTGTTATTGTGACTAAATT
Found at i:1493297 original size:55 final size:55
Alignment explanation
Indices: 1493231--1493346 Score: 214
Period size: 55 Copynumber: 2.1 Consensus size: 55
1493221 TTGATATAAC
*
1493231 TGTTCACTTTGACTAAATTTAACGTGTTATTGTGACTAAATCATTTTGTTGTAATT
1 TGTT-ACTTTGACTAAATTTAACGTGTTATTGTGACTAAATCATTTTGTTATAATT
1493287 TGTTACTTTGACTAAATTTAACGTGTTATTGTGACTAAATCATTTTGTTATAATT
1 TGTTACTTTGACTAAATTTAACGTGTTATTGTGACTAAATCATTTTGTTATAATT
1493342 TGTTA
1 TGTTA
1493347 TAGTGATAGT
Statistics
Matches: 59, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
55 55 0.93
56 4 0.07
ACGTcount: A:0.28, C:0.09, G:0.14, T:0.49
Consensus pattern (55 bp):
TGTTACTTTGACTAAATTTAACGTGTTATTGTGACTAAATCATTTTGTTATAATT
Found at i:1496242 original size:3 final size:3
Alignment explanation
Indices: 1496234--1496291 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
1496224 ATATCTACTT
1496234 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1496282 ATA ATA ATA A
1 ATA ATA ATA A
1496292 AAGTATAATC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:1497616 original size:139 final size:138
Alignment explanation
Indices: 1497431--1497690 Score: 405
Period size: 139 Copynumber: 1.9 Consensus size: 138
1497421 CAAAACTTGT
* *
1497431 TACTATAAAACATTTTTGCACCAAAAAATAGAGAGAAATATTTCTGATAGTATAAGTTTTCATAA
1 TACTATAAAACATTTTTACACCAAAAAATAGAGAGAAATAGTTCTGATAGTATAAGTTTTCATAA
*
1497496 TGATTAAAATATATAACTGCAAAAATAATTAATTACAAAAAACTTAAATTTTATTAATTACAATA
66 TGATTAAAATATATAACTACAAAAATAATTAATTACAAAAAACTTAAATTTTATTAATTACAATA
1497561 TATTTTGC
131 TATTTTGC
* * * *
1497569 TACTATATAACATTTTTTACACTAAAAAATAG-GAAGAAATGGTTCTGATAGTATAATTTTTCAT
1 TACTATAAAACA-TTTTTACACCAAAAAATAGAG-AGAAATAGTTCTGATAGTATAAGTTTTCAT
* * *
1497633 AATGATTAAAATATATAAGTACAAAAATAATTTATTACAAAAAACTTTAATTTTATTA
64 AATGATTAAAATATATAACTACAAAAATAATTAATTACAAAAAACTTAAATTTTATTA
1497691 TTTGATGTGA
Statistics
Matches: 110, Mismatches: 10, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
138 12 0.11
139 98 0.89
ACGTcount: A:0.47, C:0.08, G:0.07, T:0.37
Consensus pattern (138 bp):
TACTATAAAACATTTTTACACCAAAAAATAGAGAGAAATAGTTCTGATAGTATAAGTTTTCATAA
TGATTAAAATATATAACTACAAAAATAATTAATTACAAAAAACTTAAATTTTATTAATTACAATA
TATTTTGC
Found at i:1498284 original size:179 final size:177
Alignment explanation
Indices: 1497805--1498289 Score: 458
Period size: 180 Copynumber: 2.7 Consensus size: 177
1497795 ATATATGCTA
* * * * * * *
1497805 TCACTATAGTTAAAATTTATAACTACAAATATAATTTTTCACAAAAATGTAAATATCATTATTTT
1 TCACTATAATTAAAATATATAATTACAAACATAA-TTTTCACAAAAATCTAAATCTCATTATTTA
* * * *
1497870 TTGTGACAATGTTTTTGTAATATTTATTAACACTTATAGTTATAAAATTTGTCACTATATGATTT
65 TTGTGAAAAT-TTTTTGTAATAATTATTAAAACTTATAGTTATAAAAGTTGTCACTATATGATTT
* *
1497935 TTTTGACGCAAAAAAAATGTGGAGGGAAATCTTTGTGACAATATATTTTG
129 TTTTGACGCAAAAAAAATGT-GAGAGAAATCTTTGTGACAATACATTTTG
* * ** * * *
1497985 TCACTATAATTAAAACATATAATGACAAACATTGTTTTTATTAAAAA-CTTGAATCTCATTATTT
1 TCACTATAATTAAAATATATAATTACAAACATAATTTTCA-CAAAAATC-TAAATCTCATTATTT
* * * * * *
1498049 ATTGTGAAAATTTTTCTGTAACAATAATTATAGCTTATAGTTA-CAAAGCATGTCACTATATGAT
64 ATTGTGAAAATTTTT-TGTAATAATTATTAAAACTTATAGTTATAAAAG-TTGTCACTATATGAT
** **** *
1498113 TTTGTTT-TTGTTCCAAAAAT-T-AGAGATAATCATTTGTGACTATACATTTTG
127 TTT-TTTGACGCAAAAAAAATGTGAGAGA-AATC-TTTGTGACAATACATTTTG
*
1498164 TCACTATAATTAAAATATATAATTACAAACAAAATTTGTCACAACAAATCTAAATCTCATTATTT
1 TCACTATAATTAAAATATATAATTACAAACATAATTT-TCACAA-AAATCTAAATCTCATTATTT
* * * ** * *
1498229 GTTGTGATAATTTTTTGTCATGGTTACTAAAACTTTTAGTTATAAAAGTTGTCACTATATG
64 ATTGTGAAAATTTTTTGTAATAATTATTAAAACTTATAGTTATAAAAGTTGTCACTATATG
1498290 CCTTCAATTT
Statistics
Matches: 240, Mismatches: 54, Indels: 23
0.76 0.17 0.07
Matches are distributed among these distances:
177 4 0.02
178 4 0.02
179 94 0.39
180 134 0.56
181 4 0.02
ACGTcount: A:0.38, C:0.11, G:0.10, T:0.42
Consensus pattern (177 bp):
TCACTATAATTAAAATATATAATTACAAACATAATTTTCACAAAAATCTAAATCTCATTATTTAT
TGTGAAAATTTTTTGTAATAATTATTAAAACTTATAGTTATAAAAGTTGTCACTATATGATTTTT
TTGACGCAAAAAAAATGTGAGAGAAATCTTTGTGACAATACATTTTG
Found at i:1498785 original size:44 final size:44
Alignment explanation
Indices: 1498689--1498791 Score: 125
Period size: 44 Copynumber: 2.3 Consensus size: 44
1498679 TGTTCATGAG
* * * * *
1498689 ATACCGATACTGGTATTGATATTAATGTGTAAAAGTACACTATA
1 ATACCGATACTGGTACTGATACTAATGTGTAAAAATACACCACA
* * * *
1498733 GTATCGATATTGGTACTGATACTAATGTGTAAAAATACCCCACA
1 ATACCGATACTGGTACTGATACTAATGTGTAAAAATACACCACA
1498777 ATACCGATACTGGTA
1 ATACCGATACTGGTA
1498792 TCACTACTCC
Statistics
Matches: 47, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.31
Consensus pattern (44 bp):
ATACCGATACTGGTACTGATACTAATGTGTAAAAATACACCACA
Found at i:1500334 original size:101 final size:101
Alignment explanation
Indices: 1500213--1500411 Score: 371
Period size: 101 Copynumber: 2.0 Consensus size: 101
1500203 CTTGAGATTT
1500213 CTCTCAAGTCTACCAAGGGAGAGATTGATTCTAGTCATGAGGAAGATGAATAAATAACAATGTTT
1 CTCTCAAGTCTACCAAGGGAGAGATTGATTCTAGTCATGAGGAAGATGAATAAATAACAATGTTT
1500278 TCCAAAAGATTTAGAAGATTCATAAGGTCTAAATTG
66 TCCAAAAGATTTAGAAGATTCATAAGGTCTAAATTG
* **
1500314 CTCTCAAGTCTACCAAGGGAGAGATTGATTCTAGTGATGAGGAATCTGAATAAATAACAATGTTT
1 CTCTCAAGTCTACCAAGGGAGAGATTGATTCTAGTCATGAGGAAGATGAATAAATAACAATGTTT
1500379 TCCAAAAGATTTAGAAGATTCATAAGGTCTAAA
66 TCCAAAAGATTTAGAAGATTCATAAGGTCTAAA
1500412 AAAGGTAGAA
Statistics
Matches: 95, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
101 95 1.00
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.29
Consensus pattern (101 bp):
CTCTCAAGTCTACCAAGGGAGAGATTGATTCTAGTCATGAGGAAGATGAATAAATAACAATGTTT
TCCAAAAGATTTAGAAGATTCATAAGGTCTAAATTG
Found at i:1504782 original size:22 final size:20
Alignment explanation
Indices: 1504730--1504787 Score: 64
Period size: 22 Copynumber: 2.8 Consensus size: 20
1504720 TCGTGCATCT
*
1504730 AGTATCATTATTGTTCTTTC
1 AGTATCAATATTGTTCTTTC
*
1504750 AGTA-CTGATATTGTTCTTTCTC
1 AGTATC-AATATTGTTC-TT-TC
1504772 AGTATCAATATTGTTC
1 AGTATCAATATTGTTC
1504788 ATCAAGTACC
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
19 1 0.03
20 12 0.39
21 2 0.06
22 15 0.48
23 1 0.03
ACGTcount: A:0.22, C:0.16, G:0.12, T:0.50
Consensus pattern (20 bp):
AGTATCAATATTGTTCTTTC
Found at i:1505053 original size:20 final size:20
Alignment explanation
Indices: 1505024--1505069 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
1505014 TTGGGTAGTT
* *
1505024 TTTCACGCTTGTTACCTGTA
1 TTTCATGCTTGTTACATGTA
1505044 TTTCATGCTTGTTACATGTA
1 TTTCATGCTTGTTACATGTA
1505064 TTTCAT
1 TTTCAT
1505070 CAAAATCGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.17, C:0.20, G:0.13, T:0.50
Consensus pattern (20 bp):
TTTCATGCTTGTTACATGTA
Found at i:1507647 original size:44 final size:44
Alignment explanation
Indices: 1507542--1507648 Score: 110
Period size: 44 Copynumber: 2.4 Consensus size: 44
1507532 CATGTGGTAA
* * * *
1507542 CGATACTGGTACCGATACTAATGTGTAAAAATACATTGCACTAC
1 CGATACTGGAACCGATACTAATGTGTAAAAATACACTACAATAC
* * *
1507586 CAATACCT--ATACCGATACTAATGTGTTAAAATACACTACAATAT
1 CGATA-CTGGA-ACCGATACTAATGTGTAAAAATACACTACAATAC
*
1507630 CGATACTGGAACTGATACT
1 CGATACTGGAACCGATACT
1507649 CACTTTAAAC
Statistics
Matches: 50, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
43 2 0.04
44 45 0.90
45 3 0.06
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.28
Consensus pattern (44 bp):
CGATACTGGAACCGATACTAATGTGTAAAAATACACTACAATAC
Found at i:1511835 original size:14 final size:14
Alignment explanation
Indices: 1511804--1511850 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
1511794 ATTATTTACT
*
1511804 TTATTTACTTTCTCA
1 TTATTTA-TTTTTCA
1511819 TTATTT-TTTATTCA
1 TTATTTATTT-TTCA
1511833 TTATTTATTTTT-A
1 TTATTTATTTTTCA
1511846 TTATT
1 TTATT
1511851 AATGTACTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
13 9 0.31
14 11 0.38
15 9 0.31
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.70
Consensus pattern (14 bp):
TTATTTATTTTTCA
Found at i:1515164 original size:17 final size:17
Alignment explanation
Indices: 1515142--1515181 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
1515132 CAATCGACTA
**
1515142 TTGACCGTTGACTTGCG
1 TTGACCGTTGACCGGCG
1515159 TTGACCGTTGACCGGCG
1 TTGACCGTTGACCGGCG
1515176 TTGACC
1 TTGACC
1515182 ACTGTTGACC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.12, C:0.28, G:0.30, T:0.30
Consensus pattern (17 bp):
TTGACCGTTGACCGGCG
Found at i:1525736 original size:21 final size:22
Alignment explanation
Indices: 1525707--1525750 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
1525697 AAACACCAAC
*
1525707 ATCAACCC-AAAACAAAAATAA
1 ATCAACCCAAAAAAAAAAATAA
*
1525728 ATCATCCCAAAAAAAAAAATAA
1 ATCAACCCAAAAAAAAAAATAA
1525750 A
1 A
1525751 GGACCGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.68, C:0.20, G:0.00, T:0.11
Consensus pattern (22 bp):
ATCAACCCAAAAAAAAAAATAA
Found at i:1525872 original size:24 final size:24
Alignment explanation
Indices: 1525843--1525894 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
1525833 GTTGGAACAA
*
1525843 GATGGAGAATCAGTTGGAGGTGAT
1 GATGGAGAATCAGTTGGAGGTGAC
1525867 GATGGAGAATCAGTTGGAGGTGAC
1 GATGGAGAATCAGTTGGAGGTGAC
1525891 GATG
1 GATG
1525895 AAGTGAACGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.29, C:0.06, G:0.42, T:0.23
Consensus pattern (24 bp):
GATGGAGAATCAGTTGGAGGTGAC
Found at i:1535229 original size:131 final size:131
Alignment explanation
Indices: 1534989--1535353 Score: 532
Period size: 131 Copynumber: 2.8 Consensus size: 131
1534979 TTTGAAGAAC
* * * * *
1534989 GAAAGTGATAATATCTAATTATTTCCAATTGAGAATAGATGACGTCTCATGCCTTAAAGCAGCCA
1 GAAAATGATAATATCTAATTATTTCCAATAGAGAATAAATGACCTCTCATGCCTTAAAGCAGTCA
* * * * *
1535054 TTTATTACTCCTATCGAAAAGAAGATATATCACTATTTCATCTTAAAATTCAATATTGATTCGAG
66 TTTATTACTCCAATCGAAATGAAGAGACATCACTATTTCATCTTAAAATTCAATATTGATTCGAA
1535119 A
131 A
* *
1535120 GAAAATGATAATATCTAATTATTTTCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCAGTCA
1 GAAAATGATAATATCTAATTATTTCCAATAGAGAATAAATGACCTCTCATGCCTTAAAGCAGTCA
* *
1535185 TTTATTACTCCAATCGAAATGAGGAGACATCACTATTTCGTCTTAAAATTCAATATTGATTCGAA
66 TTTATTACTCCAATCGAAATGAAGAGACATCACTATTTCATCTTAAAATTCAATATTGATTCGAA
1535250 A
131 A
* ** *
1535251 TAAAACCATAATATCTAATTATTTCCAATAGAGAATAAATGACCTCTCATGCCTTTAAGCAGTCA
1 GAAAATGATAATATCTAATTATTTCCAATAGAGAATAAATGACCTCTCATGCCTTAAAGCAGTCA
* * * *
1535316 TTTATTACTCCAACCGAAATGAAAAGATATTACTATTT
66 TTTATTACTCCAATCGAAATGAAGAGACATCACTATTT
1535354 TCAATATTAA
Statistics
Matches: 210, Mismatches: 24, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
131 210 1.00
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (131 bp):
GAAAATGATAATATCTAATTATTTCCAATAGAGAATAAATGACCTCTCATGCCTTAAAGCAGTCA
TTTATTACTCCAATCGAAATGAAGAGACATCACTATTTCATCTTAAAATTCAATATTGATTCGAA
A
Found at i:1535840 original size:24 final size:24
Alignment explanation
Indices: 1535813--1535860 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
1535803 AACATGCAAG
1535813 CAACATGCAAAAATTAAAATAAAA
1 CAACATGCAAAAATTAAAATAAAA
1535837 CAACATGCAAAAATTAAAATAAAA
1 CAACATGCAAAAATTAAAATAAAA
1535861 AATGGAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.67, C:0.12, G:0.04, T:0.17
Consensus pattern (24 bp):
CAACATGCAAAAATTAAAATAAAA
Found at i:1536022 original size:29 final size:28
Alignment explanation
Indices: 1535982--1536051 Score: 81
Period size: 28 Copynumber: 2.5 Consensus size: 28
1535972 ACAAAGGGTA
1535982 TAAAT-AAATAAAACAG-AGGGACCAAAT
1 TAAATAAAATAAAACAGTAGGG-CCAAAT
** *
1536009 TAAAATAAAATAAAATTGTATGGCCAAAT
1 T-AAATAAAATAAAACAGTAGGGCCAAAT
1536038 TAAATAAAATAAAA
1 TAAATAAAATAAAA
1536052 AATAGACTAC
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
27 1 0.03
28 17 0.46
29 16 0.43
30 3 0.08
ACGTcount: A:0.61, C:0.07, G:0.10, T:0.21
Consensus pattern (28 bp):
TAAATAAAATAAAACAGTAGGGCCAAAT
Found at i:1537968 original size:133 final size:132
Alignment explanation
Indices: 1537625--1537970 Score: 397
Period size: 133 Copynumber: 2.6 Consensus size: 132
1537615 TATGAAAAGA
* * * * * * *
1537625 GATCTGATCCACTACTTCTTCAAGGTAGATTAGATCTAGAAACATTGATTCATTCCACTGTTCTT
1 GATCTGTTCCACTACTTCTTCAGGGAAAATAAGATCT-GAAACGTTGATTTATTCCACTGTTCTT
* * *
1537690 CATGGAAAATTGAATCGAGGCAGACTTGTTCCACTGCTACTCAGGGAAGATCAAATATGGAAAGA
65 CAAGGAAAATTGAATCGAGGCAGACTTGTTCCACTACTACTCAGGGAAGATCAAACATGGAAAGA
1537755 GGG
130 GGG
* ** * * *
1537758 GATATGTTCTGCTACTTCTTCAGGGAAAATCAA-ATATGGAGATGTTGATTTATTCCACTGTTCT
1 GATCTGTTCCACTACTTCTTCAGGGAAAAT-AAGATCT-GAAACGTTGATTTATTCCACTGTTCT
* ** * *
1537822 TCAGGGATTATTGAATCGAGGTAGACTTGTTCCACTACTACTCAGGGAAGATCAAACCTGGAAAG
64 TCAAGGAAAATTGAATCGAGGCAGACTTGTTCCACTACTACTCAGGGAAGATCAAACATGGAAAG
*
1537887 TGGG
129 AGGG
* * * *
1537891 GATCTGTTCCACTGCTTCTTCAGGGAAAATAAGATCTGTACACGTTGATTTATTCCACTATTCCT
1 GATCTGTTCCACTACTTCTTCAGGGAAAATAAGATCTG-AAACGTTGATTTATTCCACTGTTCTT
* *
1537956 CAAAGAAGATTGAAT
65 CAAGGAAAATTGAAT
1537971 AGAGTTCAAT
Statistics
Matches: 175, Mismatches: 35, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
132 3 0.02
133 171 0.98
134 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (132 bp):
GATCTGTTCCACTACTTCTTCAGGGAAAATAAGATCTGAAACGTTGATTTATTCCACTGTTCTTC
AAGGAAAATTGAATCGAGGCAGACTTGTTCCACTACTACTCAGGGAAGATCAAACATGGAAAGAG
GG
Found at i:1539226 original size:7 final size:7
Alignment explanation
Indices: 1539216--1539287 Score: 56
Period size: 7 Copynumber: 9.9 Consensus size: 7
1539206 TGTTTTTCTT
1539216 TTTTTCA
1 TTTTTCA
1539223 TTTTTTCA
1 -TTTTTCA
1539231 TTTTTCA
1 TTTTTCA
* *
1539238 TTTTCCT
1 TTTTTCA
*
1539245 TTTTTCTT
1 TTTTTC-A
*
1539253 TGATTTTCT
1 T--TTTTCA
1539262 TTTTTC-
1 TTTTTCA
*
1539268 CTTTTCA
1 TTTTTCA
1539275 TTTTTCA
1 TTTTTCA
1539282 TTTTTC
1 TTTTTC
1539288 TTTCTTCAGG
Statistics
Matches: 55, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
6 5 0.09
7 34 0.62
8 9 0.16
9 2 0.04
10 5 0.09
ACGTcount: A:0.08, C:0.17, G:0.01, T:0.74
Consensus pattern (7 bp):
TTTTTCA
Found at i:1539226 original size:15 final size:15
Alignment explanation
Indices: 1539208--1539249 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
1539198 TTTTTCTTTG
1539208 TTTTTCTTTTTTTCA
1 TTTTTCTTTTTTTCA
*
1539223 TTTTT-TCATTTTTCA
1 TTTTTCT-TTTTTTCA
*
1539238 TTTTCCTTTTTT
1 TTTTTCTTTTTT
1539250 CTTTGATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
14 1 0.05
15 20 0.91
16 1 0.05
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTTCTTTTTTTCA
Found at i:1539265 original size:37 final size:35
Alignment explanation
Indices: 1539208--1539290 Score: 103
Period size: 37 Copynumber: 2.3 Consensus size: 35
1539198 TTTTTCTTTG
* *
1539208 TTTTTCTTTTTTTCATTTTTTCATTTTTCATTTTCCT
1 TTTTTCTTTTTTTC-TTTTTTC-CTTTTCATTTTCCA
*
1539245 TTTTTCTTTGATTTTCTTTTTTCCTTTTCATTTTTCA
1 TTTTTCTTT--TTTTCTTTTTTCCTTTTCATTTTCCA
1539282 TTTTTCTTT
1 TTTTTCTTT
1539291 CTTCAGGCAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
37 29 0.71
38 7 0.17
39 5 0.12
ACGTcount: A:0.07, C:0.16, G:0.01, T:0.76
Consensus pattern (35 bp):
TTTTTCTTTTTTTCTTTTTTCCTTTTCATTTTCCA
Done.