Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003062.1 Hibiscus syriacus cultivar Beakdansim tig00006380_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: 85789
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Found at i:1206 original size:35 final size:36
Alignment explanation
Indices: 1164--1270 Score: 137
Period size: 37 Copynumber: 3.0 Consensus size: 36
1154 TTTCAATAAC
**
1164 TGTCTCAAGAGAGAC-AAATTTGTTTTACGAGAAAA
1 TGTCTCAAGAGAGACAAAATTTGTTTTAAAAGAAAA
* *
1199 TGTCTCAAGAGAGACAAAATTTAGTTCTAAAAGAAAC
1 TGTCTCAAGAGAGACAAAATTT-GTTTTAAAAGAAAA
* *
1236 TGTCTCAAGAGAGACGAAATTTG-TTTAAAGGAAAA
1 TGTCTCAAGAGAGACAAAATTTGTTTTAAAAGAAAA
1271 CAGATTCAAG
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
35 24 0.39
36 7 0.11
37 31 0.50
ACGTcount: A:0.43, C:0.11, G:0.20, T:0.26
Consensus pattern (36 bp):
TGTCTCAAGAGAGACAAAATTTGTTTTAAAAGAAAA
Found at i:1396 original size:63 final size:63
Alignment explanation
Indices: 1231--1397 Score: 228
Period size: 63 Copynumber: 2.6 Consensus size: 63
1221 AGTTCTAAAA
* *
1231 GAAACTGTCTCAAGAGAGACGAAATTTGTTTAAAGGAAAACAGATTCAAGATTTGTTTCAATG
1 GAAACTGTCTCAAGAGAGACGAAATTTGTTTTAAGGAAAACAGATTCAAGATTTGTTTCAAGG
* * *
1294 GAAACTGTTTCAAGGGAGACGAAATTTATTTTAAGGAAAACAGATTCAAAGATTTTGTTTCAAGG
1 GAAACTGTCTCAAGAGAGACGAAATTTGTTTTAAGGAAAACAGATTC-AAGA-TTTGTTTCAAGG
* * * *
1359 GAAACTGTCTCAAAAGAGA-TAAAATTGTTTTAAGAAAAA
1 GAAACTGTCTCAAGAGAGACGAAATTTGTTTTAAGGAAAA
1398 TGTCTCAAGA
Statistics
Matches: 90, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
63 43 0.48
64 20 0.22
65 27 0.30
ACGTcount: A:0.42, C:0.10, G:0.20, T:0.29
Consensus pattern (63 bp):
GAAACTGTCTCAAGAGAGACGAAATTTGTTTTAAGGAAAACAGATTCAAGATTTGTTTCAAGG
Found at i:1403 original size:34 final size:36
Alignment explanation
Indices: 1348--1434 Score: 97
Period size: 34 Copynumber: 2.5 Consensus size: 36
1338 TTCAAAGATT
* * * *
1348 TTGTTTCAAGGGAAACTGTCTCAAAAGAGATAAA-A
1 TTGTTTCAAAGAAAAATGTCTCAAAAGAGACAAACA
* * *
1383 TTGTTT-TAAGAAAAATGTCTCAAGAGAGACAAACT
1 TTGTTTCAAAGAAAAATGTCTCAAAAGAGACAAACA
1418 TTGTTTCAAAGAAAAAT
1 TTGTTTCAAAGAAAAAT
1435 AATTCAAAGT
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
34 21 0.50
35 12 0.29
36 9 0.21
ACGTcount: A:0.44, C:0.10, G:0.17, T:0.29
Consensus pattern (36 bp):
TTGTTTCAAAGAAAAATGTCTCAAAAGAGACAAACA
Found at i:1515 original size:98 final size:99
Alignment explanation
Indices: 1337--1816 Score: 419
Period size: 102 Copynumber: 4.8 Consensus size: 99
1327 AGGAAAACAG
* * * * * *
1337 ATTCAAAGATTTTGTTTCAAGGGAAACTGTCTCAAAAGAGATAAAATTGTTTTAAGA-AAAATGT
1 ATTCAAAGTTTTTGTTTCAAGGGAAACCGTCTCAAGAGAGACAAATTTGTTTTAAGAGAAAATAT
1401 CTCAAGAGAGACAAACTTTGTTTCAAAGAAAAATA
66 CTCAAGAGAGACAAACTTTGTTTCAAAGAAAAA-A
*
1436 ATTCAAAGTTTTTG-TTCAAGGGAAACCGTCCCAAGAGAGACAAATTTGTTTTAAGAGAAAATAT
1 ATTCAAAGTTTTTGTTTCAAGGGAAACCGTCTCAAGAGAGACAAATTTGTTTTAAGAGAAAATAT
* *
1500 CTCTAGAGAGA-AAACTTTGTTTCAAAGAAACAA
66 CTCAAGAGAGACAAACTTTGTTTCAAAGAAAAAA
* ** *
1533 ATTCAAAGTTTTTGTTTCAAGGGAAATCGTCTCAAGAGAGACAAAATTTGTTCCAAGAGAAACTA
1 ATTCAAAGTTTTTGTTTCAAGGGAAACCGTCTCAAGAGAGAC-AAATTTGTTTTAAGAGAAAATA
* ** * ***
1598 TCTCAAGAGAGACAAA-ATTCATTCAAGGGAAATGT
65 TCTCAAGAGAGACAAACTTTGTTTCAA-AGAAAAAA
* * * * * * * * * *
1633 TTTCAATGTTTATGTTCCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACT
1 ATTCAAAGTTTTTGTTTCAAGGGAAACCGTCTCAAGAGAGAC-AAA-TTTGTTTTAAGAGAAAAT
* ** * ***
1698 ATCTCAAGAGAGACAAAGTTCATTTCAAGGGAAATGT
64 ATCTCAAGAGAGACAAACTTTGTTTCAA-AGAAAAAA
* * * * * * * *** * *
1735 TTTCAATGTTTATATTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCCTGGGAAACT
1 ATTCAAAGTTTTTGTTTCAAGGGAAACCGTCTCAAGAGAGAC-AAA-TTTGTTTTAAGAGAAAAT
1800 ATCTCAAGAGAGACAAA
64 ATCTCAAGAGAGACAAA
1817 TTCATTTCAA
Statistics
Matches: 334, Mismatches: 40, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
97 15 0.04
98 82 0.25
99 66 0.20
100 45 0.13
101 33 0.10
102 93 0.28
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (99 bp):
ATTCAAAGTTTTTGTTTCAAGGGAAACCGTCTCAAGAGAGACAAATTTGTTTTAAGAGAAAATAT
CTCAAGAGAGACAAACTTTGTTTCAAAGAAAAAA
Found at i:1705 original size:37 final size:37
Alignment explanation
Indices: 1645--1816 Score: 105
Period size: 37 Copynumber: 4.9 Consensus size: 37
1635 TCAATGTTTA
* * * *
1645 TGTTCCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTT
*
1682 TGTTTCAAGGGAAACTATCTCAAGAGAGAC-AAAGTT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTT
** * * *
1718 CATTTCAAGGGAAA-TGTTTTC-A-A-TG------TTT
1 TGTTTCAAGGGAAACT-ATCTCAAGAGAGACAAAATTT
* * * *
1746 ATATTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 -TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTT
**
1784 TGTTTCCTGGGAAACTATCTCAAGAGAGACAAA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAA
1817 TTCATTTCAA
Statistics
Matches: 100, Mismatches: 23, Indels: 24
0.68 0.16 0.16
Matches are distributed among these distances:
28 2 0.02
29 15 0.15
30 2 0.02
32 1 0.01
33 1 0.01
34 1 0.01
35 2 0.02
36 20 0.20
37 53 0.53
38 3 0.03
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (37 bp):
TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTT
Found at i:1759 original size:102 final size:101
Alignment explanation
Indices: 1547--1826 Score: 440
Period size: 102 Copynumber: 2.8 Consensus size: 101
1537 AAAGTTTTTG
* * * *
1547 TTTCAAGGGAAA-TCGTCTCAAGAGAGACAAAA-TTTGTTCCAAGAGAAACTATCTCAAGAGAGA
1 TTTCAAGAGAAACT-GTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGA
*
1610 CAAAATTCA-TTCAAGGGAAATGTTTTCAATGTTTATG
65 C-AAATTCATTTCAAGGGAAATGTTTTCAATGTTTATA
*
1647 TTCCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGAC
1 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGAC
1712 AAAGTTCATTTCAAGGGAAATGTTTTCAATGTTTATA
66 AAA-TTCATTTCAAGGGAAATGTTTTCAATGTTTATA
**
1749 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCCTGGGAAACTATCTCAAGAGAGAC
1 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGAC
1814 AAATTCATTTCAA
66 AAATTCATTTCAA
1827 TGTTTATGTT
Statistics
Matches: 167, Mismatches: 9, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
100 30 0.18
101 45 0.27
102 92 0.55
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.29
Consensus pattern (101 bp):
TTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGAC
AAATTCATTTCAAGGGAAATGTTTTCAATGTTTATA
Found at i:1840 original size:86 final size:86
Alignment explanation
Indices: 1735--1892 Score: 253
Period size: 86 Copynumber: 1.8 Consensus size: 86
1725 AGGGAAATGT
* ***
1735 TTTCAATGTTTATATTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCCTGGGAAACT
1 TTTCAATGTTTATATTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTTGTTTCAACGGAAACT
1800 ATCTCAAGAGAGACAAATTCA
66 ATCTCAAGAGAGACAAATTCA
* * *
1821 TTTCAATGTTTATGTTTCAAGAGAAACTATCTTAAGGGAGATAAAATTTTGTTTCAACGGAAACT
1 TTTCAATGTTTATATTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTTGTTTCAACGGAAACT
1886 ATCTCAA
66 ATCTCAA
1893 TCGAGATAAA
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
86 65 1.00
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (86 bp):
TTTCAATGTTTATATTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTTGTTTCAACGGAAACT
ATCTCAAGAGAGACAAATTCA
Found at i:1877 original size:37 final size:37
Alignment explanation
Indices: 1833--1904 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
1823 TCAATGTTTA
* *
1833 TGTTTCAA-GAGAAACTATCTTAAGGGAGATAAAATTT
1 TGTTTCAACG-GAAACTATCTCAAGCGAGATAAAATTT
*
1870 TGTTTCAACGGAAACTATCTCAATCGAGATAAAAT
1 TGTTTCAACGGAAACTATCTCAAGCGAGATAAAAT
1905 CTTCTTTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
37 30 0.97
38 1 0.03
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (37 bp):
TGTTTCAACGGAAACTATCTCAAGCGAGATAAAATTT
Found at i:3494 original size:95 final size:94
Alignment explanation
Indices: 3321--3507 Score: 286
Period size: 95 Copynumber: 2.0 Consensus size: 94
3311 TATGTAAATA
* *
3321 CCTTCATCAGGTTAGCTGAATCTTATCCATAAAGCCGAGGCGTTTAACCAATTGCCTTAGAGGGA
1 CCTTCATCAGGCTAGCTGAATATTATCCATAAAGCCGAGGCGTTTAACCAATTGCCTTAGAGGGA
** *
3386 CAGTTCAAGCTTTATTGTATAGTATAATCG
66 CAACTCAACCTTTATTGTATA-TATAATCG
* *
3416 CCTTTATCAGGCTAGCTGAATATTATCCATAAAGCCGGGGCGTTTAACCAATTG-CTCTAGAGGG
1 CCTTCATCAGGCTAGCTGAATATTATCCATAAAGCCGAGGCGTTTAACCAATTGCCT-TAGAGGG
3480 ACAACTCAACCTTTATTGTATATATAAT
65 ACAACTCAACCTTTATTGTATATATAAT
3508 ATATGTGGGT
Statistics
Matches: 84, Mismatches: 7, Indels: 3
0.89 0.07 0.03
Matches are distributed among these distances:
94 8 0.10
95 76 0.90
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (94 bp):
CCTTCATCAGGCTAGCTGAATATTATCCATAAAGCCGAGGCGTTTAACCAATTGCCTTAGAGGGA
CAACTCAACCTTTATTGTATATATAATCG
Found at i:4599 original size:16 final size:16
Alignment explanation
Indices: 4561--4609 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
4551 TTATGAGTAC
4561 ATATAAATA-ATAT-A
1 ATATAAATATATATAA
4575 ATACT-AATATATATAA
1 ATA-TAAATATATATAA
*
4591 ATATAAATATAAATAA
1 ATATAAATATATATAA
4607 ATA
1 ATA
4610 AATACTAACT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
14 7 0.23
15 6 0.20
16 17 0.57
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (16 bp):
ATATAAATATATATAA
Found at i:10056 original size:19 final size:20
Alignment explanation
Indices: 10032--10077 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
10022 AAAACGAACG
* * *
10032 AAATAAGGAA-ATTAATATA
1 AAATAAAGAAGATAAATAAA
10051 AAATAAAGAAGATAAATAAA
1 AAATAAAGAAGATAAATAAA
10071 AAATAAA
1 AAATAAA
10078 AATAAAGTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.72, C:0.00, G:0.09, T:0.20
Consensus pattern (20 bp):
AAATAAAGAAGATAAATAAA
Found at i:10188 original size:2 final size:2
Alignment explanation
Indices: 10183--10297 Score: 116
Period size: 2 Copynumber: 60.0 Consensus size: 2
10173 TGTATATAAA
10183 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
* * * * * * *
10225 A- AT GGT A- AT AT AT A- AA AA AT AG A- AA AT -T A- AT AG AA AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10262 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
10298 TATTATAAAA
Statistics
Matches: 98, Mismatches: 8, Indels: 14
0.82 0.07 0.12
Matches are distributed among these distances:
1 6 0.06
2 91 0.93
3 1 0.01
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (2 bp):
AT
Found at i:10440 original size:27 final size:27
Alignment explanation
Indices: 10381--10442 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
10371 GGTATACAAA
* *
10381 ATAAAAAACGTTTGTATATATATATGG
1 ATAAATAACGTTTGTATATACATATGG
*
10408 ATAAATAACGTTTTTATATACATATGG
1 ATAAATAACGTTTGTATATACATATGG
10435 ATAAATAA
1 ATAAATAA
10443 TAAAAATAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.37
Consensus pattern (27 bp):
ATAAATAACGTTTGTATATACATATGG
Found at i:16434 original size:2 final size:2
Alignment explanation
Indices: 16427--16451 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
16417 TATTTAACTT
16427 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
16452 GTGGTTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:16579 original size:3 final size:3
Alignment explanation
Indices: 16571--16645 Score: 150
Period size: 3 Copynumber: 25.0 Consensus size: 3
16561 AACATACACT
16571 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
16619 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
16646 GTAAAGGGCA
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 72 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:22020 original size:6 final size:6
Alignment explanation
Indices: 22009--22033 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
21999 GAATGTGATG
22009 GAGGCT GAGGCT GAGGCT GAGGCT G
1 GAGGCT GAGGCT GAGGCT GAGGCT G
22034 GTGGGTGGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.52, T:0.16
Consensus pattern (6 bp):
GAGGCT
Found at i:23013 original size:12 final size:13
Alignment explanation
Indices: 22996--23024 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
22986 CTTAATTGCG
22996 AAAATTAAAA-TT
1 AAAATTAAAATTT
23008 AAAATTAAAATTT
1 AAAATTAAAATTT
23021 AAAA
1 AAAA
23025 ATTCGATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAATTAAAATTT
Found at i:23295 original size:30 final size:30
Alignment explanation
Indices: 23261--23317 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
23251 AAATAACAAA
* *
23261 AAATAGAAATTTAAAGTACCAAAATAGCAC
1 AAATAGAAAATTAAAGTACAAAAATAGCAC
*
23291 AAATAGAAAATTAAAGTATAAAAATAG
1 AAATAGAAAATTAAAGTACAAAAATAG
23318 TATTAACAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.61, C:0.07, G:0.11, T:0.21
Consensus pattern (30 bp):
AAATAGAAAATTAAAGTACAAAAATAGCAC
Found at i:24921 original size:3 final size:3
Alignment explanation
Indices: 24899--24951 Score: 63
Period size: 3 Copynumber: 17.3 Consensus size: 3
24889 CAAAAATGTA
* *
24899 AAT AA- AAT AAGT ATAT AAT AAT AAT AAT TAT AAT AGT AAT AAT AAT
1 AAT AAT AAT AA-T A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
24945 AAT AAT A
1 AAT AAT A
24952 TTTTATCCTA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
2 2 0.05
3 36 0.84
4 4 0.09
5 1 0.02
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:25585 original size:84 final size:84
Alignment explanation
Indices: 25332--25712 Score: 469
Period size: 84 Copynumber: 4.5 Consensus size: 84
25322 AATCGACAAA
* * * * * * * *
25332 TTTTTTTGACAGACAACCCTTCTCGCTTTGAGCTATGTTGTAAATTTGATATGCCTTTGAGCTGA
1 TTTTGTTGGCAGATAACCCTTCTCGCCTTGAGTTATGCTGCAAA--TGATGTGCCTTTGAGCTGA
* *
25397 ATGTAATCGAACTCGAAA-GTT
64 GTGTAATCGAACTC-AAAGGTC
** * * * * *
25418 TTTTGTTGGTGGATAGCCCTTTTTGCCTTGGGCTAT-CTGCAAATGAGATGTGCCTTTGAGCTGA
1 TTTTGTTGGCAGATAACCCTTCTCGCCTTGAGTTATGCTGCAAAT--GATGTGCCTTTGAGCTGA
*
25482 GTGTAATCGAACTCGAAGGTC
64 GTGTAATCGAACTCAAAGGTC
* *
25503 TTTTGTTGGTAGATAGCCCTTCTCGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGT
1 TTTTGTTGGCAGATAACCCTTCTCGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGT
*
25568 GTAATCAAACTCAAAGGTC
66 GTAATCGAACTCAAAGGTC
*
25587 TTTTGTTGGCAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGT
1 TTTTGTTGGCAGATAACCCTTCTCGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGT
*
25652 GTAATCGAACTCGAAGGTC
66 GTAATCGAACTCAAAGGTC
* * *
25671 TTTTGTTAGCATATAACCTTTCTCGCCTTGAGTTATGCTGCA
1 TTTTGTTGGCAGATAACCCTTCTCGCCTTGAGTTATGCTGCA
25713 CTGGGCTGGG
Statistics
Matches: 259, Mismatches: 32, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
83 1 0.00
84 156 0.60
85 68 0.26
86 34 0.13
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.36
Consensus pattern (84 bp):
TTTTGTTGGCAGATAACCCTTCTCGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGT
GTAATCGAACTCAAAGGTC
Found at i:25984 original size:121 final size:121
Alignment explanation
Indices: 25770--25994 Score: 342
Period size: 121 Copynumber: 1.9 Consensus size: 121
25760 TATGATAGGC
* *
25770 ACGATATCCTTCGTCATGAATTTAAAATCATGGATGACTCATTCGTTGTGAATTTGAGATTTGAA
1 ACGATATCCTTCGTCATGAAGTTAAAATCATGGATGACTCATTCGTTGTGAAGTTGAGATTTGAA
* *
25835 TCGGATATCATTTGTCGTGAAGTTGAAATCCAAGGGTTGCATTACTGCTTGTGGGA
66 TCGGATATCATTCGTCGTGAAGTTGAAATCCAACGGTTGCATTACTGCTTGTGGGA
* * * * * *
25891 ACGATATCTTTCGTCGTGAAGTTGAAATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTTGAA
1 ACGATATCCTTCGTCATGAAGTTAAAATCATGGATGACTCATTCGTTGTGAAGTTGAGATTTGAA
* *
25956 TTGGATATCATTCGTTGTGAAGTTGAAATCCAACGGTTG
66 TCGGATATCATTCGTCGTGAAGTTGAAATCCAACGGTTG
25995 TTTCACCAAA
Statistics
Matches: 92, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
121 92 1.00
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.36
Consensus pattern (121 bp):
ACGATATCCTTCGTCATGAAGTTAAAATCATGGATGACTCATTCGTTGTGAAGTTGAGATTTGAA
TCGGATATCATTCGTCGTGAAGTTGAAATCCAACGGTTGCATTACTGCTTGTGGGA
Found at i:26261 original size:156 final size:156
Alignment explanation
Indices: 26010--26293 Score: 426
Period size: 156 Copynumber: 1.8 Consensus size: 156
26000 CCAAATTGGT
* * * * * *
26010 TTTGAGTTGGATATTCTTCGTCGTGAAGTTGAAATCCAATCTTGTGCCAGTTGCATCATTTCGAG
1 TTTGAATTGGATATCCTTCGTCATGAAGTTGAAATCCAATCTTATGCAAGTTACATCATTTCGAG
* *
26075 CTCAATATCCTTTGCTGTGAAGTTGAAATTGGCTCTAAATAAAACTGGAAAGTTGTTTGTTGATA
66 CTCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTAAATAAAACTGGAAAGTTGTTTGTTGATA
26140 AACACTCTTTCGTTGTGAAGTTGAGC
131 AACACTCTTTCGTTGTGAAGTTGAGC
* * *
26166 TTTGAATTGGATATCCTTCGTCATGAAGTTGAAATCCAATCTTATGTAAGTTACGTTATTTCGAG
1 TTTGAATTGGATATCCTTCGTCATGAAGTTGAAATCCAATCTTATGCAAGTTACATCATTTCGAG
* * *
26231 -TCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTGA
66 CT-CAATATCCTTCGCTGTGAAGTTGAAATTGACTCTAAATAAAACTGGAAAGTTGTTTGTTGA
26294 GTCCAATATC
Statistics
Matches: 113, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
155 1 0.01
156 112 0.99
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.38
Consensus pattern (156 bp):
TTTGAATTGGATATCCTTCGTCATGAAGTTGAAATCCAATCTTATGCAAGTTACATCATTTCGAG
CTCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTAAATAAAACTGGAAAGTTGTTTGTTGATA
AACACTCTTTCGTTGTGAAGTTGAGC
Found at i:26304 original size:64 final size:64
Alignment explanation
Indices: 26228--26355 Score: 238
Period size: 64 Copynumber: 2.0 Consensus size: 64
26218 ACGTTATTTC
* *
26228 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
1 GAGTCCAATATCCTTCGTTATGAAGCTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
26292 GAGTCCAATATCCTTCGTTATGAAGCTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
1 GAGTCCAATATCCTTCGTTATGAAGCTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
26356 AACAGACAGC
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.35
Consensus pattern (64 bp):
GAGTCCAATATCCTTCGTTATGAAGCTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
Found at i:27009 original size:25 final size:25
Alignment explanation
Indices: 26967--27017 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
26957 CCCCAATATT
*
26967 CGATGTTGAGTCTCCAAAAATGCCC
1 CGATGTTGAATCTCCAAAAATGCCC
* *
26992 CGATGTTGAATCTTCAAAGATGCCC
1 CGATGTTGAATCTCCAAAAATGCCC
27017 C
1 C
27018 CATTGTTCCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (25 bp):
CGATGTTGAATCTCCAAAAATGCCC
Found at i:28097 original size:12 final size:14
Alignment explanation
Indices: 28082--28157 Score: 58
Period size: 13 Copynumber: 5.8 Consensus size: 14
28072 TTTTCTTCAC
28082 TTTTTC-CTTTGTTT
1 TTTTTCTCTTTG-TT
28096 TTGTTTCTCTTT-TT
1 TT-TTTCTCTTTGTT
* *
28110 ATTTTCTCTTTG-C
1 TTTTTCTCTTTGTT
28123 TTTTT-TCTTTG--
1 TTTTTCTCTTTGTT
*
28134 TTTTTCT-TTTCTT
1 TTTTTCTCTTTGTT
28147 TTTTTCTCTTT
1 TTTTTCTCTTT
28158 TTGTTCTGAT
Statistics
Matches: 51, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
11 8 0.16
12 7 0.14
13 20 0.39
14 8 0.16
15 4 0.08
16 4 0.08
ACGTcount: A:0.01, C:0.16, G:0.05, T:0.78
Consensus pattern (14 bp):
TTTTTCTCTTTGTT
Found at i:28115 original size:13 final size:12
Alignment explanation
Indices: 28093--28159 Score: 64
Period size: 13 Copynumber: 5.4 Consensus size: 12
28083 TTTTCCTTTG
*
28093 TTTTTGTTTCTC
1 TTTTTTTTTCTC
28105 TTTTTATTTTCTC
1 TTTTT-TTTTCTC
*
28118 TTTGCTTTTT-TC
1 TTT-TTTTTTCTC
* *
28130 TTTGTTTTTCTT
1 TTTTTTTTTCTC
28142 TTCTTTTTTTCTC
1 TT-TTTTTTTCTC
28155 TTTTT
1 TTTTT
28160 GTTCTGATTG
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
11 5 0.11
12 16 0.36
13 23 0.51
14 1 0.02
ACGTcount: A:0.01, C:0.15, G:0.04, T:0.79
Consensus pattern (12 bp):
TTTTTTTTTCTC
Found at i:28145 original size:15 final size:15
Alignment explanation
Indices: 28125--28158 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
28115 CTCTTTGCTT
28125 TTTTCTTTGTTTT-TC
1 TTTTCTTT-TTTTCTC
28140 TTTTCTTTTTTTCTC
1 TTTTCTTTTTTTCTC
28155 TTTT
1 TTTT
28159 TGTTCTGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (15 bp):
TTTTCTTTTTTTCTC
Found at i:34572 original size:28 final size:28
Alignment explanation
Indices: 34540--34597 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
34530 AAATTGTACA
34540 GAATGAACTAGAATG-AGTTATTTATATG
1 GAATGAACTAGAA-GAAGTTATTTATATG
*
34568 GAATGAACTAGAAGAAGTTCTTTATATG
1 GAATGAACTAGAAGAAGTTATTTATATG
34596 GA
1 GA
34598 TAGATTCGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
27 1 0.04
28 27 0.96
ACGTcount: A:0.40, C:0.05, G:0.22, T:0.33
Consensus pattern (28 bp):
GAATGAACTAGAAGAAGTTATTTATATG
Found at i:35269 original size:14 final size:14
Alignment explanation
Indices: 35250--35283 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
35240 GTAATTTAGC
35250 AAAGATGAAGGGTT
1 AAAGATGAAGGGTT
35264 AAAGATGAAGGGTT
1 AAAGATGAAGGGTT
35278 AAAGAT
1 AAAGAT
35284 AAAAATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.47, C:0.00, G:0.32, T:0.21
Consensus pattern (14 bp):
AAAGATGAAGGGTT
Found at i:39351 original size:3 final size:3
Alignment explanation
Indices: 39330--39371 Score: 59
Period size: 3 Copynumber: 13.7 Consensus size: 3
39320 GTCAGAAAAA
39330 TAT TAAT TA- TAT GTAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT T-AT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
39372 ATTTTATCTT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
2 2 0.06
3 28 0.78
4 6 0.17
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:40128 original size:6 final size:6
Alignment explanation
Indices: 40106--40139 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
40096 TTACTTTACT
* *
40106 TTATAA TAATGA TTATAA TTATAA TTATAA TTAT
1 TTATAA TTATAA TTATAA TTATAA TTATAA TTAT
40140 TTTATTTACA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (6 bp):
TTATAA
Found at i:40323 original size:23 final size:23
Alignment explanation
Indices: 40297--40346 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
40287 TTTCCATGTA
*
40297 ATTTATTTTAGTT-TTATTTTTTT
1 ATTTATTTT-GTTGTTACTTTTTT
*
40320 ATTTCTTTTGTTGTTACTTTTTT
1 ATTTATTTTGTTGTTACTTTTTT
40343 ATTT
1 ATTT
40347 GGCACTCTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 3 0.12
23 21 0.88
ACGTcount: A:0.14, C:0.04, G:0.06, T:0.76
Consensus pattern (23 bp):
ATTTATTTTGTTGTTACTTTTTT
Found at i:40714 original size:21 final size:20
Alignment explanation
Indices: 40665--40714 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
40655 TATTTTAAAC
* * *
40665 TTTTTTAAAAACTTTTTTCT
1 TTTTTTTAAAACTTATTTAT
40685 TTTTATTTAAAACTTATTTAT
1 TTTT-TTTAAAACTTATTTAT
40706 TTATTTTTA
1 TT-TTTTTA
40715 TTTTTCAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 4 0.16
21 19 0.76
22 2 0.08
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTTTTTAAAACTTATTTAT
Found at i:40957 original size:15 final size:15
Alignment explanation
Indices: 40932--40967 Score: 63
Period size: 15 Copynumber: 2.3 Consensus size: 15
40922 CATACCATTT
40932 TTTTGTCTTAAAATTA
1 TTTT-TCTTAAAATTA
40948 TTTTTCTTAAAATTA
1 TTTTTCTTAAAATTA
40963 TTTTT
1 TTTTT
40968 AAAAGACATG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.28, C:0.06, G:0.03, T:0.64
Consensus pattern (15 bp):
TTTTTCTTAAAATTA
Found at i:43267 original size:13 final size:13
Alignment explanation
Indices: 43249--43280 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
43239 GGATGCTCTT
43249 CTATGTTTCTTAG
1 CTATGTTTCTTAG
43262 CTATGTTTCTTAG
1 CTATGTTTCTTAG
*
43275 CCATGT
1 CTATGT
43281 GGGATTGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.16, C:0.19, G:0.16, T:0.50
Consensus pattern (13 bp):
CTATGTTTCTTAG
Found at i:44726 original size:189 final size:189
Alignment explanation
Indices: 44405--44764 Score: 513
Period size: 189 Copynumber: 1.9 Consensus size: 189
44395 TATACAATAA
* * *
44405 AGCTGAGTTATTCCGCTAAGGCAATTGGTTATAGAGAAAACTCGAAAGCCCTGGATTTATGAATA
1 AGCTGAGATATTCCGCTAAGGCAACTGGTTATAGAGAAAACTCAAAAGCCCTGGATTTATGAATA
* * * **
44470 GATTATATTCAAACTATGACATTGATCGGGTACTCGGCAATTTGGTGTATGCTACACTGTAATTG
66 AATTATATTCAAACCATGACATTGATCAGGTACTCGGCAATTCAGTGTATGCTACACTGTAATTG
* * *
44535 TCAAGTCGAAGACTTTATGACAACATGAATCCTTCAGCTAGACGAACAAAGAAAATTAT
131 TCAAGCCAAAGACTTTATGACAACATGAATCATTCAGCTAGACGAACAAAGAAAATTAT
* * *
44594 AGCTGAGATATTCCGCTAAGGTAACTGGTTATAGAGGAAACTCAAAAGCTCTGGATTTATGAATA
1 AGCTGAGATATTCCGCTAAGGCAACTGGTTATAGAGAAAACTCAAAAGCCCTGGATTTATGAATA
* * * * *
44659 AATTATATTCAACCCATGACATTGATCAGGTATTTGGCAATTCAGTGTATGCTCCACTGTGATTG
66 AATTATATTCAAACCATGACATTGATCAGGTACTCGGCAATTCAGTGTATGCTACACTGTAATTG
* * **
44724 TCAGGCCAAAGACTTTGTGATGACATGAATCATTCAGCTAG
131 TCAAGCCAAAGACTTTATGACAACATGAATCATTCAGCTAG
44765 CCAAATAAAG
Statistics
Matches: 148, Mismatches: 23, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
189 148 1.00
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.30
Consensus pattern (189 bp):
AGCTGAGATATTCCGCTAAGGCAACTGGTTATAGAGAAAACTCAAAAGCCCTGGATTTATGAATA
AATTATATTCAAACCATGACATTGATCAGGTACTCGGCAATTCAGTGTATGCTACACTGTAATTG
TCAAGCCAAAGACTTTATGACAACATGAATCATTCAGCTAGACGAACAAAGAAAATTAT
Found at i:45972 original size:15 final size:15
Alignment explanation
Indices: 45952--45989 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
45942 AAGTTTTGTC
*
45952 TCCCTTGAGACAGTT
1 TCCCTTGAGACAATT
45967 TCCCTTGAGACAATT
1 TCCCTTGAGACAATT
*
45982 TCTCTTGA
1 TCCCTTGA
45990 AAATTTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.21, C:0.26, G:0.16, T:0.37
Consensus pattern (15 bp):
TCCCTTGAGACAATT
Found at i:46171 original size:73 final size:71
Alignment explanation
Indices: 45967--46211 Score: 228
Period size: 73 Copynumber: 3.4 Consensus size: 71
45957 TGAGACAGTT
** * *
45967 TCCCTTGAGACAATTTCTCTTGAAA-ATTTTTTTTATCTCTCTTGAGACAGTTTCCTTTGAAATA
1 TCCCTTGAGACAATTTCTCTTGAAACA--AATTTTGTCTCTCTTGAGACAGTTTCC-TTGAAACA
*
46031 AATTTTATC
63 AATTTTGTC
* ** * * * *
46040 TCTCTTGAGACAGGTTCCCTT-AAAAAAAGTTTTGTCTCCCTTGAGACAATTTCACTTGAAACAA
1 TCCCTTGAGACAATTTCTCTTGAAACAAA-TTTTGTCTCTCTTGAGACAGTTTC-CTTGAAAC-A
*
46104 AATTTCGTC
63 AATTTTGTC
*
46113 TCCCTTGAGACAATTTCTCTTGAAACAAATTTTGTCTCTCTTGAGTA-TGTTTCTCTTGAAACAA
1 TCCCTTGAGACAATTTCTCTTGAAACAAATTTTGTCTCTCTTGAG-ACAGTTTC-CTTGAAACAA
46177 ATTTTGTC
64 ATTTTGTC
* * *
46185 TCCCTCGAGATAGTTTCT-TATGAAACA
1 TCCCTTGAGACAATTTCTCT-TGAAACA
46212 CCAAACTTTG
Statistics
Matches: 140, Mismatches: 25, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
71 1 0.01
72 61 0.44
73 71 0.51
74 7 0.05
ACGTcount: A:0.27, C:0.20, G:0.12, T:0.40
Consensus pattern (71 bp):
TCCCTTGAGACAATTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCTTGAAACAAAT
TTTGTC
Found at i:46210 original size:36 final size:36
Alignment explanation
Indices: 45967--46211 Score: 212
Period size: 36 Copynumber: 6.8 Consensus size: 36
45957 TGAGACAGTT
** *
45967 TCCCTTGAGACAATTTCTCTTGAAA-ATTTTTTTTATC
1 TCCCTTGAGACAATTTCTCTTGAAACA--AATTTTGTC
* * * *
46004 TCTCTTGAGACAGTTTC-CTTTGAAATAAATTTTATC
1 TCCCTTGAGACAATTTCTC-TTGAAACAAATTTTGTC
* ** * *
46040 TCTCTTGAGACAGGTTCCCTT-AAAAAAAGTTTTGTC
1 TCCCTTGAGACAATTTCTCTTGAAACAAA-TTTTGTC
* *
46076 TCCCTTGAGACAATTTCACTTGAAACAAAATTTCGTC
1 TCCCTTGAGACAATTTCTCTTGAAAC-AAATTTTGTC
46113 TCCCTTGAGACAATTTCTCTTGAAACAAATTTTGTC
1 TCCCTTGAGACAATTTCTCTTGAAACAAATTTTGTC
* **
46149 TCTCTTGAGTA-TGTTTCTCTTGAAACAAATTTTGTC
1 TCCCTTGAG-ACAATTTCTCTTGAAACAAATTTTGTC
* * *
46185 TCCCTCGAGATAGTTTCT-TATGAAACA
1 TCCCTTGAGACAATTTCTCT-TGAAACA
46212 CCAAACTTTG
Statistics
Matches: 178, Mismatches: 21, Indels: 19
0.82 0.10 0.09
Matches are distributed among these distances:
35 8 0.04
36 109 0.61
37 57 0.32
38 4 0.02
ACGTcount: A:0.27, C:0.20, G:0.12, T:0.40
Consensus pattern (36 bp):
TCCCTTGAGACAATTTCTCTTGAAACAAATTTTGTC
Found at i:46406 original size:33 final size:33
Alignment explanation
Indices: 46286--46408 Score: 115
Period size: 33 Copynumber: 3.6 Consensus size: 33
46276 TTTAGTTTCC
*
46286 TTGAGATCATTTCTCATGAAACAACAACCA-AACT
1 TTGAGATCATTTCTCATGAAACAACAA--ATATCT
* * * *
46320 TTGAGAT-GTTTCTCTTGAAACAAATCCAATTTTCT
1 TTGAGATCATTTCTCATGAAAC-AA--CAAATATCT
*
46355 TTGAGACCATTTCTCATGAAACAACAAATATCT
1 TTGAGATCATTTCTCATGAAACAACAAATATCT
* *
46388 TTGAGATCGTTTCCCATGAAA
1 TTGAGATCATTTCTCATGAAA
46409 TGAATTTTGT
Statistics
Matches: 71, Mismatches: 13, Indels: 11
0.75 0.14 0.12
Matches are distributed among these distances:
33 37 0.52
34 9 0.13
35 10 0.14
36 15 0.21
ACGTcount: A:0.35, C:0.20, G:0.11, T:0.33
Consensus pattern (33 bp):
TTGAGATCATTTCTCATGAAACAACAAATATCT
Found at i:47727 original size:201 final size:199
Alignment explanation
Indices: 47236--47784 Score: 661
Period size: 201 Copynumber: 2.7 Consensus size: 199
47226 AACTGTTCGC
* * * *
47236 AGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAATCTTTCGAGTTCGATTTCGTTCAGCT
1 AGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAAGAAAAACTTTCGAGTTC-ATTTCATTTAGCT
* * * *
47301 CGAAGGCATGTCAACCGCATGGTAGC-TGCGATGAACTACTTTCCGGTTGAATTTTAAACTGATG
65 CGAGGGCATATCAACCGCATGGTAGCAT-CGAGGAACTACTTTCCGGTTGAATTTTAAACCGATG
* * * *
47365 TCTTGAAGTCAAGAAGAAGACCTGGGTGGCTGTGATTTAGCAACAAGAAACTATATCTCAGACAA
129 TCTTTAAGTCAAGAAGAAGACATGGGTAGCTGTGATTTAGCAACAAGAAACTATATCCCAGACAA
*
47430 ATTTAC
194 ATTTAA
* * * * *
47436 AGCATAACTCAAGGCGAGAAGGGCTATCTGTCAACG-AGAATTTTTGAGTTCAATTCTATTTAGC
1 AGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAA-GAAAAACTTTCGAGTTCATTTC-ATTTAGC
* ** *
47500 TCGAGGACATATCAACCGTTTGGTAGCATCGAGGAACTACCTTCCGGTTGAATTTTAAACCGATG
64 TCGAGGGCATATCAACCGCATGGTAGCATCGAGGAACTACTTTCCGGTTGAATTTTAAACCGATG
***
47565 TCTTTAAGTCAAGAAGAAGACATGGGTTAGCTGTGATTTAGCAACAAGAAACTATATCCCAGTTT
129 TCTTTAAGTCAAGAAGAAGACATGGG-TAGCTGTGATTTAGCAACAAGAAACTATATCCCAGACA
47630 AATTTAA
193 AATTTAA
* * * * * *
47637 AGCATAGCTCAAGACGAGAAGGGTTATTTGTCAAGAAAAACCTTCAAGTTCTATTTCATTTAGCA
1 AGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAAGAAAAACTTTCGAGTTC-ATTTCATTTAGCT
* * ** ** *
47702 CGAGGGCATATCAAACACATGGTAGCATCGAGGAACTACTTTCCGGAAGAATTTTCAAGTCGAGG
65 CGAGGGCATATCAACCGCATGGTAGCATCGAGGAACTACTTTCCGGTTGAATTTT-AAACCGATG
* *
47767 TCTTTAAATCGAGAAGAA
129 TCTTTAAGTCAAGAAGAA
47785 TACCAAGGCC
Statistics
Matches: 293, Mismatches: 49, Indels: 12
0.83 0.14 0.03
Matches are distributed among these distances:
199 4 0.01
200 129 0.44
201 134 0.46
202 26 0.09
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (199 bp):
AGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAAGAAAAACTTTCGAGTTCATTTCATTTAGCTC
GAGGGCATATCAACCGCATGGTAGCATCGAGGAACTACTTTCCGGTTGAATTTTAAACCGATGTC
TTTAAGTCAAGAAGAAGACATGGGTAGCTGTGATTTAGCAACAAGAAACTATATCCCAGACAAAT
TTAA
Found at i:49609 original size:15 final size:16
Alignment explanation
Indices: 49571--49611 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
49561 AACACAGACC
49571 AATT-TTTTGTCTTAAA
1 AATTATTTT-TCTTAAA
*
49587 AATGATTTTTCTT-AA
1 AATTATTTTTCTTAAA
49602 AATTATTTTT
1 AATTATTTTT
49612 AAAATACGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 11 0.50
16 7 0.32
17 4 0.18
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.59
Consensus pattern (16 bp):
AATTATTTTTCTTAAA
Found at i:50897 original size:20 final size:20
Alignment explanation
Indices: 50868--50920 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
50858 TACTCACGGT
* *
50868 AGTATCGATACCCAGAGT-AG
1 AGTATTGATACCCACA-TAAG
*
50888 AGTATTGATACTCCCCATAAG
1 AGTATTGATAC-CCACATAAG
50909 AGTATTGATACC
1 AGTATTGATACC
50921 AAGGCATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (20 bp):
AGTATTGATACCCACATAAG
Found at i:54645 original size:19 final size:19
Alignment explanation
Indices: 54621--54668 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
54611 CTGAGGTGAA
54621 ATATTTAGCATTGAAGGTC
1 ATATTTAGCATTGAAGGTC
54640 ATATTTAGCATTGAAGGTC
1 ATATTTAGCATTGAAGGTC
*
54659 ATATTGAGCA
1 ATATTTAGCA
54669 AGTTTATTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.35
Consensus pattern (19 bp):
ATATTTAGCATTGAAGGTC
Found at i:54988 original size:31 final size:31
Alignment explanation
Indices: 54950--55010 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
54940 TTCATCTAGG
*
54950 TGTCTAACGTTACAAACGTTATCACTTTAGA
1 TGTCTAACGTTACAAACGTTACCACTTTAGA
54981 TGTCTAACGTTACAAACGTTACCACTTTAG
1 TGTCTAACGTTACAAACGTTACCACTTTAG
55011 GTGCCTCAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.34
Consensus pattern (31 bp):
TGTCTAACGTTACAAACGTTACCACTTTAGA
Found at i:57211 original size:22 final size:21
Alignment explanation
Indices: 57181--57223 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
57171 TTAAAAAAGA
*
57181 GGAACCGATTCTCCTGCTACAG
1 GGAACCGATAC-CCTGCTACAG
*
57203 GGAATCGATACCCTGCTACAG
1 GGAACCGATACCCTGCTACAG
57224 TACTGCTACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.26, C:0.30, G:0.23, T:0.21
Consensus pattern (21 bp):
GGAACCGATACCCTGCTACAG
Found at i:57986 original size:22 final size:22
Alignment explanation
Indices: 57961--58021 Score: 97
Period size: 22 Copynumber: 2.8 Consensus size: 22
57951 GGCATATGAA
57961 ATTTGTCCCGAAGGACCTA-TGT
1 ATTTGTCCCGAAGGACC-ACTGT
57983 ATTTGTCCCGAAGGACCACTGT
1 ATTTGTCCCGAAGGACCACTGT
*
58005 ATATGTCCCGAAGGACC
1 ATTTGTCCCGAAGGACC
58022 GCGTAGACCC
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
21 1 0.03
22 36 0.97
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (22 bp):
ATTTGTCCCGAAGGACCACTGT
Found at i:60889 original size:21 final size:21
Alignment explanation
Indices: 60859--60962 Score: 90
Period size: 21 Copynumber: 5.0 Consensus size: 21
60849 GATTTACATA
*
60859 TTCGCATTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
* * *
60880 TTCGCGTTGCGATTTATTTCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
*
60903 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
*
60922 TTCGCGTTGCGATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
60945 TT--CGTTGCGATAGTCCAA
1 TTCGCGTTGCGATAGTCCAA
60963 ACTCGCAACA
Statistics
Matches: 66, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
19 14 0.21
21 35 0.53
23 17 0.26
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:60916 original size:42 final size:42
Alignment explanation
Indices: 60865--60962 Score: 169
Period size: 42 Copynumber: 2.3 Consensus size: 42
60855 CATATTCGCA
*
60865 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTTCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
* *
60907 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
60949 TTGCGATAGTCCAA
1 TTGCGATAGTCCAA
60963 ACTCGCAACA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.36
Consensus pattern (42 bp):
TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
Found at i:61609 original size:6 final size:5
Alignment explanation
Indices: 61565--61605 Score: 55
Period size: 5 Copynumber: 7.6 Consensus size: 5
61555 GCCGTCCGTC
61565 TCGGG TCGGG TCGGG TCGGG TCGGGG TCGTGG TCGTGG TCG
1 TCGGG TCGGG TCGGG TCGGG TC-GGG TCG-GG TCG-GG TCG
61606 TGGTAATGCG
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
5 18 0.53
6 16 0.47
ACGTcount: A:0.00, C:0.20, G:0.56, T:0.24
Consensus pattern (5 bp):
TCGGG
Found at i:61638 original size:21 final size:21
Alignment explanation
Indices: 61612--61762 Score: 102
Period size: 21 Copynumber: 7.3 Consensus size: 21
61602 GTCGTGGTAA
*
61612 TGCGATAGTCCAAGTTCGCAT
1 TGCGATAGTCCAACTTCGCAT
* *
61633 TGCGATAGT-CGACTATCGAAT
1 TGCGATAGTCCAACT-TCGCAT
* *
61654 TGCG--AGTTACATA-TTTGCAT
1 TGCGATAG-TCCA-ACTTCGCAT
*
61674 TGCGATAGTCCAAGTTCGCAT
1 TGCGATAGTCCAACTTCGCAT
*
61695 TGCGATAGT-CGACTATCGCAT
1 TGCGATAGTCCAACT-TCGCAT
* *
61716 TGCGAT-TTACATA-TTCGCAT
1 TGCGATAGTCCA-ACTTCGCAT
*
61736 TGCGATAG-CCGACTATCGCAT
1 TGCGATAGTCCAACT-TCGCAT
61757 TGCGAT
1 TGCGAT
61763 TTACATATTC
Statistics
Matches: 102, Mismatches: 15, Indels: 26
0.71 0.10 0.18
Matches are distributed among these distances:
19 3 0.03
20 31 0.30
21 64 0.63
22 4 0.04
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.31
Consensus pattern (21 bp):
TGCGATAGTCCAACTTCGCAT
Found at i:61709 original size:62 final size:62
Alignment explanation
Indices: 61612--61762 Score: 241
Period size: 62 Copynumber: 2.4 Consensus size: 62
61602 GTCGTGGTAA
*
61612 TGCGATAGTCCAAGTTCGCATTGCGATAGTCGACTATCGAATTGCGAGTTACATATTTGCAT
1 TGCGATAGTCCAAGTTCGCATTGCGATAGTCGACTATCGAATTGCGAGTTACATATTCGCAT
* *
61674 TGCGATAGTCCAAGTTCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATATTCGCAT
1 TGCGATAGTCCAAGTTCGCATTGCGATAGTCGACTATCGAATTGCGAGTTACATATTCGCAT
* *
61736 TGCGATAG-CCGACTATCGCATTGCGAT
1 TGCGATAGTCCAAGT-TCGCATTGCGAT
61763 TTACATATTC
Statistics
Matches: 83, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
61 4 0.05
62 79 0.95
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.31
Consensus pattern (62 bp):
TGCGATAGTCCAAGTTCGCATTGCGATAGTCGACTATCGAATTGCGAGTTACATATTCGCAT
Found at i:61733 original size:41 final size:41
Alignment explanation
Indices: 61688--61804 Score: 170
Period size: 41 Copynumber: 2.9 Consensus size: 41
61678 ATAGTCCAAG
61688 TTCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATA
1 TTCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATA
*
61729 TTCGCATTGCGATAGCCGACTATCGCATTGCGATTTACATA
1 TTCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATA
*
61770 TTCGCGTTGCGAATTA-TCG---ATCGCATTGCGATTTA
1 TTCGCATTGCG-A-TAGTCGACTATCGCATTGCGATTTA
61805 GTTGGTCATT
Statistics
Matches: 71, Mismatches: 3, Indels: 6
0.89 0.04 0.08
Matches are distributed among these distances:
39 16 0.23
41 50 0.70
42 3 0.04
43 2 0.03
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (41 bp):
TTCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATA
Found at i:63570 original size:27 final size:27
Alignment explanation
Indices: 63540--63597 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
63530 AGTACAATTG
*
63540 TTTACATTCTT-TCTTTCCATCAATAAC
1 TTTACATTCTTATATTTCCATCAAT-AC
* * *
63567 TTTACTTTTTTATATTTTCATCAATAC
1 TTTACATTCTTATATTTCCATCAATAC
63594 TTTA
1 TTTA
63598 TCCTCAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 15 0.58
28 11 0.42
ACGTcount: A:0.26, C:0.19, G:0.00, T:0.55
Consensus pattern (27 bp):
TTTACATTCTTATATTTCCATCAATAC
Found at i:64406 original size:60 final size:59
Alignment explanation
Indices: 64322--64509 Score: 218
Period size: 60 Copynumber: 3.2 Consensus size: 59
64312 TGCATCATAT
*
64322 ATCCCCAAACTAT-ACTCTCATTTTAAATTGATTCTTAAACTTTTGAATAATCCAATTTC
1 ATCCCCAAACTATGACTCTCATTTTAAATT-ATTCTTAAACTTTTGAATATTCCAATTTC
* * * * *
64381 ATCCCCAAGCTATGACTTTCATTTTAAATCATTCCTTAAACTTTTG-ATCATTTCAATTCC
1 ATCCCCAAACTATGACTCTCATTTTAAATTATT-CTTAAACTTTTGAAT-ATTCCAATTTC
** * * * *
64441 ATCCATAAACTATGACTCTCATTCTAAATTAGTCCCTAAACTTTTGAATTTTCCAATTTC
1 ATCCCCAAACTATGACTCTCATTTTAAATTA-TTCTTAAACTTTTGAATATTCCAATTTC
64501 ATCCCCAAA
1 ATCCCCAAA
64510 TTCATCCAAA
Statistics
Matches: 105, Mismatches: 19, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
59 17 0.16
60 85 0.81
61 3 0.03
ACGTcount: A:0.32, C:0.24, G:0.04, T:0.39
Consensus pattern (59 bp):
ATCCCCAAACTATGACTCTCATTTTAAATTATTCTTAAACTTTTGAATATTCCAATTTC
Found at i:67140 original size:23 final size:23
Alignment explanation
Indices: 67057--67138 Score: 80
Period size: 23 Copynumber: 3.6 Consensus size: 23
67047 TTCAATTGAG
*
67057 ATTCATATAAAAATTTATAGATT
1 ATTCATATAAAAATTTATAAATT
* *
67080 A-TCGATTAAAAAAATTTAATTAA-T
1 ATTC-A-TATAAAAATTT-ATAAATT
*
67104 ATTTATATAAAAATTTATAAATT
1 ATTCATATAAAAATTTATAAATT
67127 ATTCAT-TAAAAA
1 ATTCATATAAAAA
67139 ATAATGATAT
Statistics
Matches: 47, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
22 12 0.26
23 18 0.38
24 13 0.28
25 4 0.09
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.41
Consensus pattern (23 bp):
ATTCATATAAAAATTTATAAATT
Found at i:68063 original size:33 final size:33
Alignment explanation
Indices: 68024--68092 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
68014 AAAACTTATT
*
68024 TTTTGCCCGATACTGTTCAAACTTTATTTTTTA
1 TTTTGCCCGATACTATTCAAACTTTATTTTTTA
* * *
68057 TTTTGCCGGATATTATTCAAATTTTATTTTTTA
1 TTTTGCCCGATACTATTCAAACTTTATTTTTTA
68090 TTT
1 TTT
68093 AACACCTTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.22, C:0.13, G:0.09, T:0.57
Consensus pattern (33 bp):
TTTTGCCCGATACTATTCAAACTTTATTTTTTA
Found at i:68600 original size:12 final size:12
Alignment explanation
Indices: 68583--68610 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
68573 AATTGTTTAA
68583 AAATATTAAAAT
1 AAATATTAAAAT
68595 AAATATTAAAAT
1 AAATATTAAAAT
68607 AAAT
1 AAAT
68611 TTTTAATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAATATTAAAAT
Found at i:71371 original size:21 final size:21
Alignment explanation
Indices: 71342--71394 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
71332 ATTCTGATTA
71342 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* *
71363 TCGCGTTGCGATTTTCCGAAT
1 TCGCATTGCGATTTTCCAAAT
*
71384 TCGCAATGCGA
1 TCGCATTGCGA
71395 ATATGTAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:71409 original size:20 final size:20
Alignment explanation
Indices: 71384--71467 Score: 92
Period size: 20 Copynumber: 4.5 Consensus size: 20
71374 TTTTCCGAAT
71384 TCGCAATGCGAATATGTAAA
1 TCGCAATGCGAATATGTAAA
71404 TCGCAATGC-AA-A--T--A
1 TCGCAATGCGAATATGTAAA
*
71418 T-GCAATGCAAATATGTAAA
1 TCGCAATGCGAATATGTAAA
*
71437 TTGCAATGCGAATATGTAAA
1 TCGCAATGCGAATATGTAAA
*
71457 TCGCAACGCGA
1 TCGCAATGCGA
71468 TTCTGACTAT
Statistics
Matches: 54, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
13 7 0.13
14 4 0.07
15 1 0.02
16 1 0.02
17 1 0.02
18 1 0.02
19 4 0.07
20 35 0.65
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.24
Consensus pattern (20 bp):
TCGCAATGCGAATATGTAAA
Found at i:71424 original size:13 final size:13
Alignment explanation
Indices: 71406--71432 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
71396 TATGTAAATC
71406 GCAATGCAAATAT
1 GCAATGCAAATAT
71419 GCAATGCAAATAT
1 GCAATGCAAATAT
71432 G
1 G
71433 TAAATTGCAA
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:0.44, C:0.15, G:0.19, T:0.22
Consensus pattern (13 bp):
GCAATGCAAATAT
Found at i:71431 original size:33 final size:33
Alignment explanation
Indices: 71386--71452 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
71376 TTCCGAATTC
*
71386 GCAATGCGAATATGTAAATCGCAATGCAAATAT
1 GCAATGCAAATATGTAAATCGCAATGCAAATAT
* *
71419 GCAATGCAAATATGTAAATTGCAATGCGAATAT
1 GCAATGCAAATATGTAAATCGCAATGCAAATAT
71452 G
1 G
71453 TAAATCGCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.42, C:0.13, G:0.19, T:0.25
Consensus pattern (33 bp):
GCAATGCAAATATGTAAATCGCAATGCAAATAT
Found at i:71479 original size:20 final size:20
Alignment explanation
Indices: 71456--71528 Score: 110
Period size: 20 Copynumber: 3.6 Consensus size: 20
71446 GAATATGTAA
*
71456 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATGCTGACT
**
71476 ATCGCAACTAGATGCTGACT
1 ATCGCAACGCGATGCTGACT
71496 ATCGCAACGCGATGCTGACT
1 ATCGCAACGCGATGCTGACT
*
71516 ATCGCAATGCGAT
1 ATCGCAACGCGAT
71529 TTTCAAAGCG
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATGCTGACT
Found at i:71636 original size:17 final size:17
Alignment explanation
Indices: 71614--71648 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
71604 TACGTAATCG
71614 CAACTCATAACCTAAAA
1 CAACTCATAACCTAAAA
71631 CAACTCATAACCTAAAA
1 CAACTCATAACCTAAAA
71648 C
1 C
71649 TAAGTCTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.51, C:0.31, G:0.00, T:0.17
Consensus pattern (17 bp):
CAACTCATAACCTAAAA
Found at i:72185 original size:20 final size:20
Alignment explanation
Indices: 72143--72212 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 20
72133 GTTGCGATTC
* * **
72143 TCGCGTTACAATAGTCAAAT
1 TCGCGTTGCGATAGTCATTT
72163 TCGCGTTGCGATAGTCATTT
1 TCGCGTTGCGATAGTCATTT
* **
72183 TCGTGTTGCGATTTTCATTT
1 TCGCGTTGCGATAGTCATTT
*
72203 TCGTGTTGCG
1 TCGCGTTGCG
72213 GTTTTAAGTT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.17, C:0.19, G:0.23, T:0.41
Consensus pattern (20 bp):
TCGCGTTGCGATAGTCATTT
Found at i:72217 original size:20 final size:20
Alignment explanation
Indices: 72162--72217 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
72152 AATAGTCAAA
* **
72162 TTCGCGTTGCGATAGTCATT
1 TTCGTGTTGCGATTTTCATT
72182 TTCGTGTTGCGATTTTCATT
1 TTCGTGTTGCGATTTTCATT
*
72202 TTCGTGTTGCGGTTTT
1 TTCGTGTTGCGATTTT
72218 AAGTTTCAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.09, C:0.16, G:0.25, T:0.50
Consensus pattern (20 bp):
TTCGTGTTGCGATTTTCATT
Found at i:72224 original size:20 final size:20
Alignment explanation
Indices: 72181--72224 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
72171 CGATAGTCAT
* *
72181 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTTAAG
*
72201 TTTCGTGTTGCGGTTTTAAG
1 TTTCGTGTTGCGATTTTAAG
72221 TTTC
1 TTTC
72225 AGAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.09, C:0.14, G:0.23, T:0.55
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTAAG
Found at i:73183 original size:18 final size:18
Alignment explanation
Indices: 73160--73209 Score: 100
Period size: 18 Copynumber: 2.8 Consensus size: 18
73150 TTTACTCATA
73160 ATTTCACTTAGATTAACC
1 ATTTCACTTAGATTAACC
73178 ATTTCACTTAGATTAACC
1 ATTTCACTTAGATTAACC
73196 ATTTCACTTAGATT
1 ATTTCACTTAGATT
73210 GCTTAGTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.32, C:0.20, G:0.06, T:0.42
Consensus pattern (18 bp):
ATTTCACTTAGATTAACC
Found at i:73383 original size:20 final size:20
Alignment explanation
Indices: 73358--73405 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
73348 TAGTTTACTT
73358 TCGCAACGCGAAAATGACTA
1 TCGCAACGCGAAAATGACTA
**
73378 TCGCAACGCGAATTTGACTA
1 TCGCAACGCGAAAATGACTA
73398 TCGCAACG
1 TCGCAACG
73406 AAAGAATCGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.33, C:0.27, G:0.21, T:0.19
Consensus pattern (20 bp):
TCGCAACGCGAAAATGACTA
Found at i:73473 original size:20 final size:19
Alignment explanation
Indices: 73448--73514 Score: 91
Period size: 20 Copynumber: 3.5 Consensus size: 19
73438 GCGATTCTCT
73448 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTC-AATTCG
*
73468 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCA-ATTCG
73488 CGTTGCGATAGTC-ATTCG
1 CGTTGCGATAGTCAATTCG
*
73506 TGTTGCGAT
1 CGTTGCGAT
73515 TTTAAGTTTC
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
18 12 0.28
19 1 0.02
20 30 0.70
ACGTcount: A:0.18, C:0.19, G:0.27, T:0.36
Consensus pattern (19 bp):
CGTTGCGATAGTCAATTCG
Found at i:75528 original size:14 final size:14
Alignment explanation
Indices: 75509--75570 Score: 70
Period size: 14 Copynumber: 4.3 Consensus size: 14
75499 TTGCTTGTTT
75509 AATTGATTTGTAAA
1 AATTGATTTGTAAA
75523 AATTGATTTGTAAA
1 AATTGATTTGTAAA
* *
75537 AGTTGATTTGTTTAA
1 AATTGATTTG-TAAA
* *
75552 TATTGATGTGTAAA
1 AATTGATTTGTAAA
75566 TAATT
1 -AATT
75571 CTTATTTGTG
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
14 26 0.67
15 13 0.33
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:75542 original size:28 final size:29
Alignment explanation
Indices: 75511--75565 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
75501 GCTTGTTTAA
*
75511 TTGATTTG-TAAAAATTGATTTGTAAAAG
1 TTGATTTGTTAAAAATTGATGTGTAAAAG
* *
75539 TTGATTTGTTTAATATTGATGTGTAAA
1 TTGATTTGTTAAAAATTGATGTGTAAA
75566 TAATTCTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 8 0.35
29 15 0.65
ACGTcount: A:0.35, C:0.00, G:0.18, T:0.47
Consensus pattern (29 bp):
TTGATTTGTTAAAAATTGATGTGTAAAAG
Found at i:75759 original size:20 final size:20
Alignment explanation
Indices: 75717--75890 Score: 182
Period size: 20 Copynumber: 9.1 Consensus size: 20
75707 AAATCGCAAC
*
75717 GCGAAAGTC-AATTCGCGTT
1 GCGATAGTCAAATTCGCGTT
* * *
75736 GCGATAGTCTAATACGCTTT
1 GCGATAGTCAAATTCGCGTT
*
75756 GCGAT--T----TTCTCGTT
1 GCGATAGTCAAATTCGCGTT
* * *
75770 GCGATAGTCGAATACCCGTT
1 GCGATAGTCAAATTCGCGTT
* *
75790 GCGATAATCAAATTCACGTT
1 GCGATAGTCAAATTCGCGTT
* *
75810 GCGATAGTTAAATTCTCGTT
1 GCGATAGTCAAATTCGCGTT
75830 GCGATAGTCAAATTCGCGTT
1 GCGATAGTCAAATTCGCGTT
75850 GCGATAGTCAAATTCGCGTT
1 GCGATAGTCAAATTCGCGTT
*
75870 GCGATAGTCAAATTCACGTT
1 GCGATAGTCAAATTCGCGTT
75890 G
1 G
75891 TGATTATTTC
Statistics
Matches: 130, Mismatches: 18, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
14 10 0.08
16 1 0.01
18 1 0.01
19 8 0.06
20 110 0.85
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.32
Consensus pattern (20 bp):
GCGATAGTCAAATTCGCGTT
Found at i:76007 original size:18 final size:18
Alignment explanation
Indices: 75984--76018 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
75974 AAGCCGGTTG
*
75984 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
76002 TGATTGCGATTTTGATT
1 TGATTGCGATTTTGATT
76019 ACGATTTTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.03, G:0.26, T:0.54
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:76024 original size:18 final size:18
Alignment explanation
Indices: 75985--76024 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
75975 AGCCGGTTGT
* **
75985 GATTGGGATTTTGATTTT
1 GATTGCGATTTTGATTAC
76003 GATTGCGATTTTGATTAC
1 GATTGCGATTTTGATTAC
76021 GATT
1 GATT
76025 TTGATTGCCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.20, C:0.05, G:0.25, T:0.50
Consensus pattern (18 bp):
GATTGCGATTTTGATTAC
Found at i:76038 original size:12 final size:12
Alignment explanation
Indices: 75997--76032 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
75987 TTGGGATTTT
75997 GATTTTGATTGC
1 GATTTTGATTGC
*
76009 GATTTTGATTAC
1 GATTTTGATTGC
76021 GATTTTGATTGC
1 GATTTTGATTGC
76033 CTTTTTCTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.19, C:0.08, G:0.22, T:0.50
Consensus pattern (12 bp):
GATTTTGATTGC
Found at i:79188 original size:20 final size:20
Alignment explanation
Indices: 79163--79236 Score: 121
Period size: 20 Copynumber: 3.7 Consensus size: 20
79153 GAAATTCAGT
* *
79163 GTTGCGATAGTCAGAATCGC
1 GTTGCGATAGTCAGAACCTC
79183 GTTGCGATAGTCAGAACCTC
1 GTTGCGATAGTCAGAACCTC
*
79203 GTTGCGATAATCAGAACCTC
1 GTTGCGATAGTCAGAACCTC
79223 GTTGCGATAGTCAG
1 GTTGCGATAGTCAG
79237 TGATAGTCAG
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (20 bp):
GTTGCGATAGTCAGAACCTC
Found at i:79256 original size:30 final size:30
Alignment explanation
Indices: 79208--79265 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
79198 ACCTCGTTGC
*
79208 GATAATCAGAACCTCGTTGCGATAGTCAGT
1 GATAATCAGAACCGCGTTGCGATAGTCAGT
* *
79238 GATAGTCAGAATCGCGTTGCGATAGTCA
1 GATAATCAGAACCGCGTTGCGATAGTCA
79266 TAATCGCATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (30 bp):
GATAATCAGAACCGCGTTGCGATAGTCAGT
Found at i:79263 original size:20 final size:20
Alignment explanation
Indices: 79238--79280 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
79228 GATAGTCAGT
*
79238 GATAGTCAGAATCGCGTTGC
1 GATAGTCAGAATCGCATTGC
*
79258 GATAGTCATAATCGCATTGC
1 GATAGTCAGAATCGCATTGC
79278 GAT
1 GAT
79281 TTACATATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (20 bp):
GATAGTCAGAATCGCATTGC
Found at i:79287 original size:20 final size:20
Alignment explanation
Indices: 79264--79339 Score: 143
Period size: 20 Copynumber: 3.8 Consensus size: 20
79254 TTGCGATAGT
*
79264 CATAATCGCATTGCGATTTA
1 CATATTCGCATTGCGATTTA
79284 CATATTCGCATTGCGATTTA
1 CATATTCGCATTGCGATTTA
79304 CATATTCGCATTGCGATTTA
1 CATATTCGCATTGCGATTTA
79324 CATATTCGCATTGCGA
1 CATATTCGCATTGCGA
79340 ATTCGGAAAA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 55 1.00
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (20 bp):
CATATTCGCATTGCGATTTA
Found at i:79360 original size:21 final size:21
Alignment explanation
Indices: 79336--79381 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
79326 TATTCGCATT
79336 GCGAATTCGGAAAATCGCAAC
1 GCGAATTCGGAAAATCGCAAC
* *
79357 GCGAATTTGGAAAATCGCAAT
1 GCGAATTCGGAAAATCGCAAC
79378 GCGA
1 GCGA
79382 TAGTCAGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.37, C:0.20, G:0.26, T:0.17
Consensus pattern (21 bp):
GCGAATTCGGAAAATCGCAAC
Found at i:79458 original size:19 final size:19
Alignment explanation
Indices: 79429--79484 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
79419 CGATACCGGA
*
79429 GATCGCGTTGCGAATTATC
1 GATCGCATTGCGAATTATC
*
79448 TATCGCATTGCGAATTATC
1 GATCGCATTGCGAATTATC
*
79467 GATCGCATTGCGATTTAT
1 GATCGCATTGCGAATTAT
79485 TTGGTCATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (19 bp):
GATCGCATTGCGAATTATC
Done.