Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008621.1 Hibiscus syriacus cultivar Beakdansim tig00111584_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: 1991651
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 11
Found at i:1863746 original size:162 final size:161
Alignment explanation
Indices: 1863557--1863859 Score: 371
Period size: 162 Copynumber: 1.9 Consensus size: 161
1863547 TCTGAGCAGC
* * * *
1863557 ATTGTTCTCATTCTTAACTGCATTCTCATTGTTGGTGTTG-ATTC-GAGAA-GCTTTGTCATTCT
1 ATTGTTCTCATTCTGAACTGCATTCTCACTGTTAGTGTTGAATTCTG-GAAGGCCTTG---TTCT
* * *
1863619 CATTC-TGACTTACATTCTCACCGTTGGTGTCAATTTGAACAGCATTATTGTTCTCATTCTGACT
62 CATTCAT-ACCTACATTCTCACCGTTGGTGTCAATTTGAACAGCAATATTATTCTCATTCTGACT
*
1863683 TTCATTCTCGCTGTTGATGTCAATCTGAACAGCATT
126 TGCATTCTCGCTGTTGATGTCAATCTGAACAGCATT
** *
1863719 ATTGTTCTCATTCTGAGTTGCATTCTCACTGTTATTGTTGTAATTCTGGAAGGCCTTGTTCTCAT
1 ATTGTTCTCATTCTGAACTGCATTCTCACTGTTAGTGTTG-AATTCTGGAAGGCCTTGTTCTCAT
* * ** * *
1863784 TCATACCTGCTTTCTCATTGTTGGTGTCGATTTGAACAGCAATGTTATTCTCATTCTGACTTGCA
65 TCATACCTACATTCTCACCGTTGGTGTCAATTTGAACAGCAATATTATTCTCATTCTGACTTGCA
1863849 TTCTCGCTGTT
130 TTCTCGCTGTT
1863860 ATTGTTGTCA
Statistics
Matches: 119, Mismatches: 17, Indels: 10
0.82 0.12 0.07
Matches are distributed among these distances:
162 105 0.88
163 1 0.01
164 7 0.06
165 6 0.05
ACGTcount: A:0.19, C:0.21, G:0.17, T:0.44
Consensus pattern (161 bp):
ATTGTTCTCATTCTGAACTGCATTCTCACTGTTAGTGTTGAATTCTGGAAGGCCTTGTTCTCATT
CATACCTACATTCTCACCGTTGGTGTCAATTTGAACAGCAATATTATTCTCATTCTGACTTGCAT
TCTCGCTGTTGATGTCAATCTGAACAGCATT
Found at i:1863778 original size:108 final size:111
Alignment explanation
Indices: 1863665--1863907 Score: 296
Period size: 108 Copynumber: 2.2 Consensus size: 111
1863655 GAACAGCATT
* * * * *
1863665 ATTGTTCTCATTCTGACTTTCATTCTCGCTGTTGATGTCAATCTGAACAGCATTATTGTTCTCAT
1 ATTGTTCTCATTCTGACCTGCATTCTCACTGTTGATGTCAATCTGAACAGCAATATTATTCTCAT
* *
1863730 TCTGAGTTGCATTCTCACTGTTATTGTTGT-A-A-TTCTGGAAGGC
66 TCTGACTTGCATTCTCACTGTTATTGTTGTCATAGTTCTGGAAAGC
* * * * * * *
1863773 CTTGTTCTCATTCAT-ACCTGCTTTCTCATTGTTGGTGTCGATTTGAACAGCAATGTTATTCTCA
1 ATTGTTCTCATTC-TGACCTGCATTCTCACTGTTGATGTCAATCTGAACAGCAATATTATTCTCA
*
1863837 TTCTGACTTGCATTCTCGCTGTTATTGTTGTCATAGTTCTGGAAAGC
65 TTCTGACTTGCATTCTCACTGTTATTGTTGTCATAGTTCTGGAAAGC
* *
1863884 ATTATTCTCATTCTGACCGGCATT
1 ATTGTTCTCATTCTGACCTGCATT
1863908 TTTGTTGTTG
Statistics
Matches: 111, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
108 79 0.71
109 2 0.02
110 2 0.02
111 28 0.25
ACGTcount: A:0.19, C:0.21, G:0.17, T:0.43
Consensus pattern (111 bp):
ATTGTTCTCATTCTGACCTGCATTCTCACTGTTGATGTCAATCTGAACAGCAATATTATTCTCAT
TCTGACTTGCATTCTCACTGTTATTGTTGTCATAGTTCTGGAAAGC
Found at i:1863853 original size:54 final size:54
Alignment explanation
Indices: 1863557--1863859 Score: 233
Period size: 54 Copynumber: 5.6 Consensus size: 54
1863547 TCTGAGCAGC
* * * * *
1863557 ATTGTTCTCATTCTTAAC-TGCATTCTCATTGTTGGTGTTGATTCGAGA-AGCTTT
1 ATTGTTCTCATTC-TGACTTGCATTCTCACTGTTGGTGTCGATTTGA-ACAGCATT
* ** * * *
1863611 GTCATTCTCATTCTGACTTACATTCTCACCGTTGGTGTCAATTTGAACAGCATT
1 ATTGTTCTCATTCTGACTTGCATTCTCACTGTTGGTGTCGATTTGAACAGCATT
* * * * *
1863665 ATTGTTCTCATTCTGACTTTCATTCTCGCTGTTGATGTCAATCTGAACAGCATT
1 ATTGTTCTCATTCTGACTTGCATTCTCACTGTTGGTGTCGATTTGAACAGCATT
* ** * *
1863719 ATTGTTCTCATTCTGAGTTGCATTCTCACTGTTATTGTTGTAATTCTGGAA-GGC---
1 ATTGTTCTCATTCTGACTTGCATTCTCACTGTTGGTGTCG--ATT-T-GAACAGCATT
* * * * *
1863773 CTTGTTCTCATTCAT-ACCTGCTTTCTCATTGTTGGTGTCGATTTGAACAGCAAT
1 ATTGTTCTCATTC-TGACTTGCATTCTCACTGTTGGTGTCGATTTGAACAGCATT
* * *
1863827 GTTATTCTCATTCTGACTTGCATTCTCGCTGTT
1 ATTGTTCTCATTCTGACTTGCATTCTCACTGTT
1863860 ATTGTTGTCA
Statistics
Matches: 194, Mismatches: 43, Indels: 24
0.74 0.16 0.09
Matches are distributed among these distances:
50 3 0.02
51 3 0.02
52 3 0.02
53 5 0.03
54 171 0.88
55 1 0.01
56 2 0.01
57 3 0.02
58 3 0.02
ACGTcount: A:0.19, C:0.21, G:0.17, T:0.44
Consensus pattern (54 bp):
ATTGTTCTCATTCTGACTTGCATTCTCACTGTTGGTGTCGATTTGAACAGCATT
Found at i:1863943 original size:108 final size:106
Alignment explanation
Indices: 1863705--1863962 Score: 263
Period size: 108 Copynumber: 2.4 Consensus size: 106
1863695 GTTGATGTCA
*
1863705 ATCTGAACAGCATTATTGTTCTCATTCTGAGTTGCATTCTCACTGTTATTGTTGTAATTCTGGAA
1 ATCTGAACAGCA--ATTGTTCTCATTCTGACTTGCATTCTCACTGTTATTGTTGTAATTCTGGAA
* * * * *
1863770 GGCCTTGTTCTCATTCATACCTGCTTTCTCATTGTTGGTGTCG
64 AGCATTATTCTCATTCATACCGGCTTTCTCATTGTTGGTATCG
* * *
1863813 ATTTGAACAGCAATGTTATTCTCATTCTGACTTGCATTCTCGCTGTTATTGTTGTCATAGTTCTG
1 ATCTGAACAGCAA--TTGTTCTCATTCTGACTTGCATTCTCACTGTTATTGTTGT-A-A-TTCTG
**
1863878 GAAAGCATTATTCTCATTC-TGACCGGCATTT-TTGTTGTTGGTAAT-G
61 GAAAGCATTATTCTCATTCAT-ACCGGC-TTTCTCATTGTTGGT-ATCG
* * * *
1863924 CTCTGAGCAGC-ATTGTTCTCATTCTCACTCGCATTCTCA
1 ATCTGAACAGCAATTGTTCTCATTCTGACTTGCATTCTCA
1863963 TGGTTGTTGG
Statistics
Matches: 124, Mismatches: 18, Indels: 16
0.78 0.11 0.10
Matches are distributed among these distances:
106 1 0.01
108 71 0.57
109 1 0.01
110 3 0.02
111 44 0.35
112 4 0.03
ACGTcount: A:0.19, C:0.21, G:0.18, T:0.42
Consensus pattern (106 bp):
ATCTGAACAGCAATTGTTCTCATTCTGACTTGCATTCTCACTGTTATTGTTGTAATTCTGGAAAG
CATTATTCTCATTCATACCGGCTTTCTCATTGTTGGTATCG
Found at i:1864059 original size:57 final size:57
Alignment explanation
Indices: 1863998--1864139 Score: 239
Period size: 57 Copynumber: 2.5 Consensus size: 57
1863988 AATCTTTAAC
* *
1863998 CTCATTCTGACTTGCATTCTCATTGTTGCTGGTATTGATCTGAATGGCATCACTGAT
1 CTCATTCTGACTTGCATTATCATTGTTGCTGGTATTGATCTGAACGGCATCACTGAT
* * *
1864055 CTCATTCTGACTTGCATTATCACTGTTGCTGGTATTGATCTGAACGGCATCATTGTT
1 CTCATTCTGACTTGCATTATCATTGTTGCTGGTATTGATCTGAACGGCATCACTGAT
1864112 CTCATTCTGACTTGCATTATCATTGTTG
1 CTCATTCTGACTTGCATTATCATTGTTG
1864140 TTGTTGCTCT
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 79 1.00
ACGTcount: A:0.19, C:0.21, G:0.18, T:0.42
Consensus pattern (57 bp):
CTCATTCTGACTTGCATTATCATTGTTGCTGGTATTGATCTGAACGGCATCACTGAT
Found at i:1864359 original size:51 final size:51
Alignment explanation
Indices: 1863881--1864360 Score: 143
Period size: 51 Copynumber: 9.1 Consensus size: 51
1863871 AGTTCTGGAA
** * ** * * **
1863881 AGCATTATTCTCATTCTGACCGGCATTTTTGTTGTTGGTAATGCTCTGAGC
1 AGCATTATTCTCATTCTGACTTGCATTCTCATTGCTGCTGTTGCTCTGAGC
* * * * * ** *
1863932 AGCATTGTTCTCATTCTCACTCGCATTCTCATGGTTGTTGGTGTTAATCTGAAC
1 AGCATTATTCTCATTCTGACTTGCATTCTCA---TTGCTGCTGTTGCTCTGAGC
* * *
1863986 AGAATCT-TTAACCTCATTCTGACTTGCATTCTCATTGTTGCTGGTATTGATCTGAATGGC
1 AGCAT-TATT---CTCATTCTGACTTGCATTCTCATTGCTGCT-G--TTGCTCTG-A--GC
* * * * * *
1864046 ATCACTGA-TCTCATTCTGACTTGCATTATCACTGTTGCTGGTATTGATCTGAACGGC
1 AGCA-TTATTCTCATTCTGACTTGCATTCTCA---TTGCTGCTGTTGCTCTG-A--GC
* * * * * * *
1864103 ATCATTGTTCTCATTCTGACTTGCATTATCATTGTTGTTGTTGCTCTGGGA
1 AGCATTATTCTCATTCTGACTTGCATTCTCATTGCTGCTGTTGCTCTGAGC
* * ** ** * * **** *
1864154 AGTATAATTCTCATTCTGACCAGCATTCTGGTTGTTGGTAACACTGTGAGC
1 AGCATTATTCTCATTCTGACTTGCATTCTCATTGCTGCTGTTGCTCTGAGC
* * * ** * * *
1864205 AGCATTTTTCTCGTTTTGACCAGCATTCTCATT-CTTGTTGTTGCTCAGAAC
1 AGCATTATTCTCATTCTGACTTGCATTCTCATTGC-TGCTGTTGCTCTGAGC
* * *
1864256 AGTATCATTGTTCTCATTCTGACTTGC-TT-TC-TCG-T-C-GTTGCTCTG-GAA
1 AG---CATTATTCTCATTCTGACTTGCATTCTCATTGCTGCTGTTGCTCTGAG-C
*
1864304 AGCATTATTCTCATTCTGACTTGCATTCTCATTGCTGCTGTTGTTCTGAGC
1 AGCATTATTCTCATTCTGACTTGCATTCTCATTGCTGCTGTTGCTCTGAGC
1864355 AGCATT
1 AGCATT
1864361 TTCATTTAAA
Statistics
Matches: 316, Mismatches: 81, Indels: 64
0.69 0.18 0.14
Matches are distributed among these distances:
45 21 0.07
46 2 0.01
47 2 0.01
48 12 0.04
49 1 0.00
50 2 0.01
51 110 0.35
52 3 0.01
53 2 0.01
54 58 0.18
55 2 0.01
56 1 0.00
57 88 0.28
58 1 0.00
60 10 0.03
61 1 0.00
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.41
Consensus pattern (51 bp):
AGCATTATTCTCATTCTGACTTGCATTCTCATTGCTGCTGTTGCTCTGAGC
Found at i:1871969 original size:19 final size:20
Alignment explanation
Indices: 1871945--1871984 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
1871935 GATGTTTTCC
*
1871945 ATCAAA-AAGAAAATAAAAA
1 ATCAAATAAAAAAATAAAAA
1871964 ATCAAATAAAAAAATAAAAA
1 ATCAAATAAAAAAATAAAAA
1871984 A
1 A
1871985 AAAAACTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.80, C:0.05, G:0.03, T:0.12
Consensus pattern (20 bp):
ATCAAATAAAAAAATAAAAA
Found at i:1871986 original size:12 final size:12
Alignment explanation
Indices: 1871948--1871999 Score: 50
Period size: 12 Copynumber: 4.1 Consensus size: 12
1871938 GTTTTCCATC
* *
1871948 AAAAAGAAAATA
1 AAAAATAAAAAA
*
1871960 AAAAATCAAATAA
1 AAAAAT-AAAAAA
1871973 AAAAATAAAAAA
1 AAAAATAAAAAA
1871985 AAAAACTATAAAAA
1 AAAAA-TA-AAAAA
1871999 A
1 A
1872000 TCCAGAAATC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
12 15 0.45
13 12 0.36
14 6 0.18
ACGTcount: A:0.83, C:0.04, G:0.02, T:0.12
Consensus pattern (12 bp):
AAAAATAAAAAA
Found at i:1874307 original size:18 final size:19
Alignment explanation
Indices: 1874284--1874319 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
1874274 CTCCTTTCTT
1874284 AATATTAA-AAAATAAATA
1 AATATTAATAAAATAAATA
1874302 AATATTAATAAAATAAAT
1 AATATTAATAAAATAAAT
1874320 TAGTATAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
AATATTAATAAAATAAATA
Found at i:1874356 original size:110 final size:106
Alignment explanation
Indices: 1874227--1874422 Score: 281
Period size: 110 Copynumber: 1.8 Consensus size: 106
1874217 TAAATAAGAT
* * *
1874227 ATTTATTTAGAAATGTCAGAAAAAGGA-TTCTATGTGCTTTAAGACAGCTCC-TTTCTTAATATT
1 ATTTATTTAGAAATATCAG-AAAAGGACTTCTAGGTGCTTTAAGAAAGC-CCATTTCTTAATATT
1874290 AAAAAATAAATAAATATTAATAAAATAAATTAGTATAGTTTATAAAA
64 AAAAAAT--ATAAATATT--TAAAATAAATTAGTATAGTTTATAAAA
1874337 ATTTATTTA-AGAATATCAGAAAAGGACTTCTAGGTGCTTTAAGAAAGCCCATTTCTTAATATTA
1 ATTTATTTAGA-AATATCAGAAAAGGACTTCTAGGTGCTTTAAGAAAGCCCATTTCTTAATATTA
1874401 AAAAATATAAATATTTAAAATA
65 AAAAATATAAATATTTAAAATA
1874423 TGATTATTAT
Statistics
Matches: 80, Mismatches: 3, Indels: 10
0.86 0.03 0.11
Matches are distributed among these distances:
106 7 0.09
108 9 0.11
109 10 0.12
110 54 0.68
ACGTcount: A:0.46, C:0.08, G:0.10, T:0.36
Consensus pattern (106 bp):
ATTTATTTAGAAATATCAGAAAAGGACTTCTAGGTGCTTTAAGAAAGCCCATTTCTTAATATTAA
AAAATATAAATATTTAAAATAAATTAGTATAGTTTATAAAA
Found at i:1875981 original size:3 final size:3
Alignment explanation
Indices: 1875967--1876029 Score: 76
Period size: 3 Copynumber: 21.3 Consensus size: 3
1875957 TATTTATTTG
* *
1875967 TAA TAA -AA TAA TAA TAA TAA TAA T-A TAT TAA TAA TAA TAA TAA AAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
1876013 TAA TAA TTAA GAA TAA T
1 TAA TAA -TAA TAA TAA T
1876030 TTTAATGAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
2 4 0.08
3 44 0.86
4 3 0.06
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1876212 original size:46 final size:46
Alignment explanation
Indices: 1876159--1876700 Score: 906
Period size: 46 Copynumber: 11.8 Consensus size: 46
1876149 GACGGAAATG
* * *
1876159 TTTGAAAACATCATGAACTGAAGGGCTTACAGATGACCCAAAGGTT
1 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTT
1876205 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTT
1 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTT
*
1876251 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCTGAAGGTT
1 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTT
1876297 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTT
1 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTT
*
1876343 TTTAAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTT
1 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTT
* *
1876389 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCAAAGTTT
1 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTT
1876435 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTT
1 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTT
* *
1876481 TTTGAAAACATCATGCACTGAAGGGCTTACAAATGACCCGAAGG-T
1 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTT
* **
1876526 TTTGATAACATCATGCACTGAAGGGTTTACAGATGACCCGAAGGTT
1 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTT
*
1876572 TTTGATAACATCATGCACTGAAGGACTTACAGATGACCCCGAAGGTT
1 TTTGAAAACATCATGCACTGAAGGACTTACAGATGA-CCCGAAGGTT
* * **
1876619 TTTGATAACATCATGCACTGAAGGGCTTACAGATGACTTGAAGGTTT
1 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG-TT
1876666 TTTGAAAACATCATGCACTGAAGGACTTACAGATG
1 TTTGAAAACATCATGCACTGAAGGACTTACAGATG
1876701 TTGGAAATAG
Statistics
Matches: 470, Mismatches: 23, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
45 42 0.09
46 348 0.74
47 80 0.17
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (46 bp):
TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTT
Found at i:1877494 original size:19 final size:19
Alignment explanation
Indices: 1877479--1877521 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
1877469 TCATATCTGT
*
1877479 TTTGAGAGAATCTATCATC
1 TTTGAGAAAATCTATCATC
1877498 TTTGAGAAAATCTATCATC
1 TTTGAGAAAATCTATCATC
1877517 TTTGA
1 TTTGA
1877522 AGAATGTAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.40
Consensus pattern (19 bp):
TTTGAGAAAATCTATCATC
Found at i:1877504 original size:17 final size:17
Alignment explanation
Indices: 1877484--1877526 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 17
1877474 TCTGTTTTGA
1877484 GAGAATCTATCATCTTT
1 GAGAATCTATCATCTTT
1877501 GAGAAAATCTATCATCTTT
1 GAG--AATCTATCATCTTT
1877520 GAAGAAT
1 G-AGAAT
1877527 GTAGATGTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 3 0.13
18 3 0.13
19 15 0.65
20 2 0.09
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (17 bp):
GAGAATCTATCATCTTT
Found at i:1877557 original size:101 final size:102
Alignment explanation
Indices: 1877382--1877585 Score: 401
Period size: 101 Copynumber: 2.0 Consensus size: 102
1877372 ATCTTTAAAA
1877382 AGAGAATCTATCATCTTTGAGAAAATCTATCATCTTTGAAGAATGTAGATGTAGATATACCTGAC
1 AGAGAATCTATCATCTTTGAGAAAATCTATCATCTTTGAAGAATGTAGATGTAGATATACCTGAC
1877447 TCAGCAGGGATTAATTAAGAGATC-ATATCTGTTTTG
66 TCAGCAGGGATTAATTAAGAGATCAATATCTGTTTTG
1877483 AGAGAATCTATCATCTTTGAGAAAATCTATCATCTTTGAAGAATGTAGATGTAGATATACCTGAC
1 AGAGAATCTATCATCTTTGAGAAAATCTATCATCTTTGAAGAATGTAGATGTAGATATACCTGAC
1877548 TCAGCAGGGATTAATTAAGAGATCAATATCTGTTTTG
66 TCAGCAGGGATTAATTAAGAGATCAATATCTGTTTTG
1877585 A
1 A
1877586 TCTGACTCTT
Statistics
Matches: 102, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
101 89 0.87
102 13 0.13
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (102 bp):
AGAGAATCTATCATCTTTGAGAAAATCTATCATCTTTGAAGAATGTAGATGTAGATATACCTGAC
TCAGCAGGGATTAATTAAGAGATCAATATCTGTTTTG
Found at i:1880495 original size:16 final size:16
Alignment explanation
Indices: 1880474--1880506 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
1880464 AGAGGTTACC
1880474 TTATACTGTCTTGGCA
1 TTATACTGTCTTGGCA
1880490 TTATACTGTCTTGGCA
1 TTATACTGTCTTGGCA
1880506 T
1 T
1880507 ACTTTTGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.45
Consensus pattern (16 bp):
TTATACTGTCTTGGCA
Found at i:1881305 original size:32 final size:32
Alignment explanation
Indices: 1881264--1881325 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
1881254 GAAGTAATGA
*
1881264 TTGTTATGCTCATCTTGTAGAGATACTTCTCG
1 TTGTTATGCTCATCTCGTAGAGATACTTCTCG
*
1881296 TTGTTATGCTCGTCTCGTAGAGATACTTCT
1 TTGTTATGCTCATCTCGTAGAGATACTTCT
1881326 TGTGTCCCGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.18, C:0.19, G:0.19, T:0.44
Consensus pattern (32 bp):
TTGTTATGCTCATCTCGTAGAGATACTTCTCG
Found at i:1881799 original size:7 final size:8
Alignment explanation
Indices: 1881781--1881810 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
1881771 TTGGTTCAAA
1881781 TTTTTCCT
1 TTTTTCCT
1881789 TTTTTCCTT
1 TTTTTCC-T
1881798 TTTTTCCT
1 TTTTTCCT
1881806 TTTTT
1 TTTTT
1881811 TTCAAGTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTTCCT
Found at i:1881813 original size:10 final size:9
Alignment explanation
Indices: 1881781--1881811 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
1881771 TTGGTTCAAA
1881781 TTTTTCC-T
1 TTTTTCCTT
1881789 TTTTTCCTT
1 TTTTTCCTT
1881798 TTTTTCCTT
1 TTTTTCCTT
1881807 TTTTT
1 TTTTT
1881812 TCAAGTATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTTCCTT
Found at i:1884586 original size:12 final size:13
Alignment explanation
Indices: 1884562--1884590 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
1884552 AATGAAACAA
1884562 AAATGCAAAATGT
1 AAATGCAAAATGT
1884575 AAATGC-AAATGT
1 AAATGCAAAATGT
1884587 AAAT
1 AAAT
1884591 ATGTGAATGT
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:0.55, C:0.07, G:0.14, T:0.24
Consensus pattern (13 bp):
AAATGCAAAATGT
Found at i:1886235 original size:28 final size:29
Alignment explanation
Indices: 1886182--1886237 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
1886172 ATATTAATAA
*
1886182 AATAATATACATATAAATATTATGAAAAT
1 AATAATATACATATAAAAATTATGAAAAT
*
1886211 AATAAGTATATATA-AAAAATT-TGAAAA
1 AATAA-TATACATATAAAAATTATGAAAA
1886238 GAAAGAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 6 0.25
29 11 0.46
30 7 0.29
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (29 bp):
AATAATATACATATAAAAATTATGAAAAT
Found at i:1886802 original size:18 final size:19
Alignment explanation
Indices: 1886779--1886814 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
1886769 CTCTTTTCTT
1886779 AATATTAA-AAAATAAATA
1 AATATTAATAAAATAAATA
1886797 AATATTAATAAAATAAAT
1 AATATTAATAAAATAAAT
1886815 TAGTATAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
AATATTAATAAAATAAATA
Found at i:1886941 original size:110 final size:109
Alignment explanation
Indices: 1886722--1886917 Score: 283
Period size: 110 Copynumber: 1.8 Consensus size: 109
1886712 TAAGATATTT
* * * * *
1886722 ATTTATTTAGAAATATCAGAAAAGGGCTTCTATGTGCTTTAAGACATCTCTTTTCTTAATATTAA
1 ATTTATTTAGAAATATCAGAAAAGGACTTCTAGGTGCTTTAAGACAGCCCATTTCTTAATATTAA
1886787 AAAATAAATAAATATTAATAAAATAAATTAGTATAGTTTATAAAA
66 AAAAT-AATAAATATTAATAAAATAAATTAGTATAGTTTATAAAA
*
1886832 ATTTATTTA-AGAATATCAGAAAAGGACTTCTAGGTGCTTTAAGACAGCCCATTTCTTATTATTA
1 ATTTATTTAGA-AATATCAGAAAAGGACTTCTAGGTGCTTTAAGACAGCCCATTTCTTAATATTA
*
1886896 AAAAGT-ATAAATATT--TAAAATA
65 AAAAATAATAAATATTAATAAAATA
1886918 TTAATATTAT
Statistics
Matches: 78, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
106 7 0.09
108 9 0.12
109 1 0.01
110 61 0.78
ACGTcount: A:0.44, C:0.09, G:0.10, T:0.37
Consensus pattern (109 bp):
ATTTATTTAGAAATATCAGAAAAGGACTTCTAGGTGCTTTAAGACAGCCCATTTCTTAATATTAA
AAAATAATAAATATTAATAAAATAAATTAGTATAGTTTATAAAA
Found at i:1888448 original size:3 final size:3
Alignment explanation
Indices: 1888434--1888491 Score: 91
Period size: 3 Copynumber: 19.3 Consensus size: 3
1888424 TATTTATTTG
1888434 TAA TAA -AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
1888481 TTAA GAA TAA T
1 -TAA TAA TAA T
1888492 TTTAATGAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
2 2 0.04
3 46 0.90
4 3 0.06
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1890545 original size:25 final size:25
Alignment explanation
Indices: 1890508--1890557 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
1890498 ACTATTCTGG
*
1890508 GATTTGAACAAATTAAAGAACTTTA
1 GATTTGAAAAAATTAAAGAACTTTA
1890533 GATTTGAAAAAATTAAAGAACTTTA
1 GATTTGAAAAAATTAAAGAACTTTA
1890558 CTCTTCTGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.50, C:0.06, G:0.12, T:0.32
Consensus pattern (25 bp):
GATTTGAAAAAATTAAAGAACTTTA
Found at i:1893081 original size:44 final size:44
Alignment explanation
Indices: 1893014--1893101 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 44
1893004 TAATCAACAT
* *
1893014 GACCTTAATAGTGCTCATCCCGAAAGTCAACAATCTCGAGCTCA
1 GACCTTAATAGTGCTCATCCCGAAAATCAACAATCCCGAGCTCA
*
1893058 GACCTTAATAGTGCTCATTCCGAAAATCAACAATCCCGAGCTCA
1 GACCTTAATAGTGCTCATCCCGAAAATCAACAATCCCGAGCTCA
1893102 TCAACAAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.23
Consensus pattern (44 bp):
GACCTTAATAGTGCTCATCCCGAAAATCAACAATCCCGAGCTCA
Found at i:1894716 original size:21 final size:22
Alignment explanation
Indices: 1894674--1894719 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 22
1894664 AATTTATTTA
*
1894674 TTAAAATATTATAATTATAAATT
1 TTAAAATATGATAA-TATAAATT
1894697 TTAAAATATGATAA-ATAAATT
1 TTAAAATATGATAATATAAATT
1894718 TT
1 TT
1894720 TTGACAAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.41
23 13 0.59
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (22 bp):
TTAAAATATGATAATATAAATT
Found at i:1894721 original size:23 final size:24
Alignment explanation
Indices: 1894669--1894721 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 24
1894659 CCTATAATTT
* *
1894669 ATTTATTAAAATATTATAATTATAA
1 ATTTTTTAAAATATGATAA-TATAA
1894694 A--TTTTAAAATATGATAA-ATAA
1 ATTTTTTAAAATATGATAATATAA
1894715 ATTTTTT
1 ATTTTTT
1894722 GACAAACTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
21 5 0.21
23 18 0.75
25 1 0.04
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (24 bp):
ATTTTTTAAAATATGATAATATAA
Found at i:1897922 original size:2 final size:2
Alignment explanation
Indices: 1897882--1897909 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1897872 TCTTTTTTAA
1897882 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
1897910 GTAATTCTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1899031 original size:23 final size:23
Alignment explanation
Indices: 1899004--1899059 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
1898994 GTAAACGAAT
* *
1899004 ATAAATGAACACAATAAATGAAC
1 ATAAACGAACACAATAAATAAAC
*
1899027 GTAAACGAACACAATAAATAAAC
1 ATAAACGAACACAATAAATAAAC
1899050 ATAAACGAAC
1 ATAAACGAAC
1899060 GTAACTGAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.61, C:0.16, G:0.09, T:0.14
Consensus pattern (23 bp):
ATAAACGAACACAATAAATAAAC
Found at i:1899461 original size:30 final size:30
Alignment explanation
Indices: 1899406--1899464 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
1899396 ATAAACGAAC
* *
1899406 TTCCCACCGAATAGTTCGCTAAACGTTCAA
1 TTCCCACCGAATAATTCACTAAACGTTCAA
* *
1899436 TTCCCACCGAATAATTTACTGAACGTTCA
1 TTCCCACCGAATAATTCACTAAACGTTCA
1899465 GTTCGTTTAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.29
Consensus pattern (30 bp):
TTCCCACCGAATAATTCACTAAACGTTCAA
Found at i:1901168 original size:51 final size:51
Alignment explanation
Indices: 1901103--1901205 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
1901093 GGGGTTTTTG
1901103 TTTAGCTTGTTAAGAAATGTGAGAATGAAGAGAAAGACGAAGGGGGTGGTT
1 TTTAGCTTGTTAAGAAATGTGAGAATGAAGAGAAAGACGAAGGGGGTGGTT
1901154 TTTAGCTTGTTAAGAAATGTGAGAATGAAGAGAAAGACGAAGGGGGTGGTT
1 TTTAGCTTGTTAAGAAATGTGAGAATGAAGAGAAAGACGAAGGGGGTGGTT
1901205 T
1 T
1901206 GAAATGGTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.35, C:0.04, G:0.35, T:0.26
Consensus pattern (51 bp):
TTTAGCTTGTTAAGAAATGTGAGAATGAAGAGAAAGACGAAGGGGGTGGTT
Found at i:1906707 original size:19 final size:21
Alignment explanation
Indices: 1906667--1906715 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
1906657 TATCTATTTT
1906667 AATTT-TTTTTTTCTATTGAA
1 AATTTATTTTTTTCTATTGAA
1906687 AATTTATTTTTTTCT-TT-AA
1 AATTTATTTTTTTCTATTGAA
1906706 AATTTTATTT
1 AA-TTTATTT
1906716 GTTTGTCCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 4 0.15
20 14 0.52
21 9 0.33
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (21 bp):
AATTTATTTTTTTCTATTGAA
Found at i:1910068 original size:17 final size:17
Alignment explanation
Indices: 1910042--1910084 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
1910032 TTTAAAGAAT
*
1910042 TATATATTTTA-AATATA
1 TATATTTTTTATAATA-A
1910059 TATATTTTTTATTAATAA
1 TATATTTTTTA-TAATAA
1910077 TATATTTT
1 TATATTTT
1910085 CATTGAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 10 0.43
18 9 0.39
19 4 0.17
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TATATTTTTTATAATAA
Found at i:1916269 original size:21 final size:21
Alignment explanation
Indices: 1916245--1916290 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
1916235 GACTATTGCA
1916245 TTGCGAGTTTTTAAATTCGCG
1 TTGCGAGTTTTTAAATTCGCG
*
1916266 TTGCGATTTTTTAAATTCGCG
1 TTGCGAGTTTTTAAATTCGCG
1916287 TTGC
1 TTGC
1916291 AATTTTCCGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.17, C:0.15, G:0.22, T:0.46
Consensus pattern (21 bp):
TTGCGAGTTTTTAAATTCGCG
Found at i:1916295 original size:21 final size:21
Alignment explanation
Indices: 1916252--1916296 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
1916242 GCATTGCGAG
*
1916252 TTTTTAAATTCGCGTTGCGAT
1 TTTTTAAATTCGCGTTGCAAT
1916273 TTTTTAAATTCGCGTTGCAAT
1 TTTTTAAATTCGCGTTGCAAT
1916294 TTT
1 TTT
1916297 CCGACTATCG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.20, C:0.13, G:0.16, T:0.51
Consensus pattern (21 bp):
TTTTTAAATTCGCGTTGCAAT
Found at i:1916324 original size:20 final size:20
Alignment explanation
Indices: 1916299--1916349 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
1916289 GCAATTTTCC
*
1916299 GACTATCGCAACGCGATTAT
1 GACTATCGCAACGCGATGAT
*
1916319 GACTATCGCAACGCGATGCT
1 GACTATCGCAACGCGATGAT
1916339 GACTATCGCAA
1 GACTATCGCAA
1916350 TGCAATTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (20 bp):
GACTATCGCAACGCGATGAT
Found at i:1916572 original size:22 final size:21
Alignment explanation
Indices: 1916522--1916573 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
1916512 ACTCTCTAAG
* *
1916522 GCGACATCCGTCCCCATCTCC
1 GCGAAATCAGTCCCCATCTCC
*
1916543 GACAAAATCAGTCCCCATCTCC
1 G-CGAAATCAGTCCCCATCTCC
1916565 AGCGAAATC
1 -GCGAAATC
1916574 CGTCTATCTC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
21 1 0.04
22 23 0.92
23 1 0.04
ACGTcount: A:0.27, C:0.42, G:0.13, T:0.17
Consensus pattern (21 bp):
GCGAAATCAGTCCCCATCTCC
Found at i:1917054 original size:20 final size:20
Alignment explanation
Indices: 1916959--1917065 Score: 101
Period size: 20 Copynumber: 5.5 Consensus size: 20
1916949 AGAATCGCAA
*
1916959 TGCGATTTT-AGTTTCGCGT
1 TGCGATTTTCATTTTCGCGT
1916978 TGCGATTTTCA-TTTCGCGT
1 TGCGATTTTCATTTTCGCGT
* ** **
1916997 TACGATAGTCAAATTCGCGT
1 TGCGATTTTCATTTTCGCGT
** *
1917017 TGCGATAGTCATTTTCGTGT
1 TGCGATTTTCATTTTCGCGT
**
1917037 TGCGATTTTCATTTTCGTTT
1 TGCGATTTTCATTTTCGCGT
1917057 TGCGATTTT
1 TGCGATTTT
1917066 AAGTTTCAGA
Statistics
Matches: 75, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
19 25 0.33
20 50 0.67
ACGTcount: A:0.15, C:0.17, G:0.21, T:0.47
Consensus pattern (20 bp):
TGCGATTTTCATTTTCGCGT
Found at i:1918801 original size:18 final size:18
Alignment explanation
Indices: 1918789--1918823 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
1918779 TTTCATATAG
1918789 ATTAACCATTTCACTTAA
1 ATTAACCATTTCACTTAA
1918807 ATTAACCATTTCACTTA
1 ATTAACCATTTCACTTA
1918824 GATTGCTTAG
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:0.37, C:0.23, G:0.00, T:0.40
Consensus pattern (18 bp):
ATTAACCATTTCACTTAA
Found at i:1919075 original size:20 final size:20
Alignment explanation
Indices: 1919047--1919090 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
1919037 GATTCTCTCA
*
1919047 TTGCGATAGTCAAATTCGCG
1 TTGCAATAGTCAAATTCGCG
**
1919067 TTGCAATAGTCATTTTCGCG
1 TTGCAATAGTCAAATTCGCG
1919087 TTGC
1 TTGC
1919091 GAAAGTAAAC
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:0.20, C:0.20, G:0.23, T:0.36
Consensus pattern (20 bp):
TTGCAATAGTCAAATTCGCG
Found at i:1919308 original size:20 final size:20
Alignment explanation
Indices: 1919283--1919330 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
1919273 TAGTTTACTT
1919283 TCGCAACGCGAAAATGACTA
1 TCGCAACGCGAAAATGACTA
** *
1919303 TCGCAACGCGAATTTTACTA
1 TCGCAACGCGAAAATGACTA
1919323 TCGCAACG
1 TCGCAACG
1919331 AAAGAATCGC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.21
Consensus pattern (20 bp):
TCGCAACGCGAAAATGACTA
Found at i:1919386 original size:308 final size:302
Alignment explanation
Indices: 1918824--1919400 Score: 813
Period size: 308 Copynumber: 1.9 Consensus size: 302
1918814 ATTTCACTTA
**
1918824 GATTGCTTAGTAAATTCATTCGGTTGCTGTTAATACTGCTAAACTGTTTATTCTTTAACCCTGTG
1 GATTGCTTAGTAAATTCATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTCTTTAACCCTGTG
1918889 AAGTTAGTATTTGTTTTTGGTTGTCTTTTGGTTGAAGTAATGCAATCAATTCAAGTTTCAATTTG
66 AAGTTAGTATTTGTTTTTGGTTGTCTTTTGGTTGAAGTAATGCAATCAATTCAAGTTTCAATTTG
* *
1918954 CAGAAGAAGAATAGTTTACTTTCGCAATGCGAAAATGACTATCGCAACGAAAGAATCGCAATGCG
131 CAGAAGAAGAATAGTTTACTTTCGCAACGCGAAAATGACTATCGCAACGAAACAATCGCAA-GCG
* *** * ** *
1919019 AAATGAAAATCGCATTGTGATTCTCTCATTGCGATAGTCAAATTCGCGTTGCAATAGTCATTTTC
195 AAATG-AAATCGCATCGTGAAAATCGCATTGCGATA-TC--A-TCGCGTTGCAATAGTCAAATTA
1919084 GCGTTGCGAAAGTAAACTATTCTTCTTCTGCAAATTGAAACTTGAATG
255 GCGTTGCGAAAGTAAACTATTCTTCTTCTGCAAATTGAAACTTGAATG
*
1919132 GATTGCTTAGTAAATTCATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTTTTTAACCCTGTG
1 GATTGCTTAGTAAATTCATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTCTTTAACCCTGTG
*
1919197 AAGTTAGTATTTGTTTTTGGTTGTCTTTTGGTTGAAGTAATGCAATCCATTCAAGTTTCAATTTG
66 AAGTTAGTATTTGTTTTTGGTTGTCTTTTGGTTGAAGTAATGCAATCAATTCAAGTTTCAATTTG
*
1919262 CAGAAGAAGAATAGTTTACTTTCGCAACGCGAAAATGACTATCGCAACGCGAATTTTACTATCGC
131 CAGAAGAAGAATAGTTTACTTTCGCAACGCGAAAATGACTATCGCAA--CGAA----ACAATCGC
* *
1919327 AA-CGAAA-G-AATCGCAATGCGAAATGAAAATCGCATTGCGAT-TC-TCTCGTTGCGATAGTCA
190 AAGCGAAATGAAATCGC-AT-CG---TGAAAATCGCATTGCGATATCATCGCGTTGCAATAGTCA
1919387 AATTAGCGTTGCGA
250 AATTAGCGTTGCGA
1919401 TAGTCATTCG
Statistics
Matches: 241, Mismatches: 17, Indels: 22
0.86 0.06 0.08
Matches are distributed among these distances:
308 198 0.82
309 6 0.02
310 6 0.02
311 2 0.01
312 7 0.03
314 22 0.09
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.35
Consensus pattern (302 bp):
GATTGCTTAGTAAATTCATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTCTTTAACCCTGTG
AAGTTAGTATTTGTTTTTGGTTGTCTTTTGGTTGAAGTAATGCAATCAATTCAAGTTTCAATTTG
CAGAAGAAGAATAGTTTACTTTCGCAACGCGAAAATGACTATCGCAACGAAACAATCGCAAGCGA
AATGAAATCGCATCGTGAAAATCGCATTGCGATATCATCGCGTTGCAATAGTCAAATTAGCGTTG
CGAAAGTAAACTATTCTTCTTCTGCAAATTGAAACTTGAATG
Found at i:1919417 original size:18 final size:19
Alignment explanation
Indices: 1919373--1919419 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
1919363 GCGATTCTCT
1919373 CGTTGCGATAGTCAAATTAG
1 CGTTGCGATAGTC-AATTAG
*
1919393 CGTTGCGATAGTC-ATTCG
1 CGTTGCGATAGTCAATTAG
*
1919411 TGTTGCGAT
1 CGTTGCGAT
1919420 TTTAAGTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 12 0.48
20 13 0.52
ACGTcount: A:0.21, C:0.17, G:0.28, T:0.34
Consensus pattern (19 bp):
CGTTGCGATAGTCAATTAG
Found at i:1919950 original size:18 final size:19
Alignment explanation
Indices: 1919911--1919952 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 19
1919901 CTCTCCTATC
1919911 ATCGTTCAAGAGGCCTCCCCT
1 ATCGTTCAAGAGG-C-CCCCT
1919932 ATCGTTCAAGAGG-CCCCT
1 ATCGTTCAAGAGGCCCCCT
1919950 ATC
1 ATC
1919953 ATCCCTCAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
21 13 0.62
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.24
Consensus pattern (19 bp):
ATCGTTCAAGAGGCCCCCT
Found at i:1919964 original size:42 final size:42
Alignment explanation
Indices: 1919905--1919988 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 42
1919895 ACCCGACTCT
** * *
1919905 CCTATCATCGTTCAAGAG-GCCTCCCCTATCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGCCCCTCCCC-ACCGTTCAAGAGGCC
*
1919947 CCTATCATCCCTCAAGAGCCCCTTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGCCCCTCCCCACCGTTCAAGAGGCC
1919989 AGAGGTCCCT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
42 30 0.83
43 6 0.17
ACGTcount: A:0.21, C:0.40, G:0.17, T:0.21
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGCCCCTCCCCACCGTTCAAGAGGCC
Found at i:1921330 original size:14 final size:14
Alignment explanation
Indices: 1921293--1921354 Score: 61
Period size: 14 Copynumber: 4.3 Consensus size: 14
1921283 TTTATTGTTT
*
1921293 AATTGATTTATAAA
1 AATTGATTTGTAAA
1921307 AATTGATTTGTAAA
1 AATTGATTTGTAAA
* *
1921321 AGTTGATTTGTTTAA
1 AATTGATTTG-TAAA
* *
1921336 TATTGATGTGTAAA
1 AATTGATTTGTAAA
1921350 TAATT
1 -AATT
1921355 CTTATTTGTG
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
14 25 0.66
15 13 0.34
ACGTcount: A:0.39, C:0.00, G:0.15, T:0.47
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:1921497 original size:20 final size:20
Alignment explanation
Indices: 1921469--1921506 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1921459 CGCTAAACTT
*
1921469 AAAATCGCAATGCGAAAGAC
1 AAAAACGCAATGCGAAAGAC
1921489 AAAAACGCAATGCGAAAG
1 AAAAACGCAATGCGAAAG
1921507 TCAATTCGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.18, G:0.21, T:0.08
Consensus pattern (20 bp):
AAAAACGCAATGCGAAAGAC
Found at i:1921542 original size:20 final size:19
Alignment explanation
Indices: 1921499--1921597 Score: 55
Period size: 20 Copynumber: 5.3 Consensus size: 19
1921489 AAAAACGCAA
* *
1921499 TGCGAAAGTCAATTCGCGT
1 TGCGATAGTCAATACGCGT
*
1921518 TGCGATAGTCTAATACGCTT
1 TGCGATAGTC-AATACGCGT
* *
1921538 TGCGAT--T---TTCTCGT
1 TGCGATAGTCAATACGCGT
* *
1921552 TGCGACAGTCAAATACCCGT
1 TGCGATAGTC-AATACGCGT
* *
1921572 TGCGATAATCAAATTCGCGT
1 TGCGATAGTC-AATACGCGT
1921592 TGCGAT
1 TGCGAT
1921598 TTTCTCGTTG
Statistics
Matches: 60, Mismatches: 13, Indels: 13
0.70 0.15 0.15
Matches are distributed among these distances:
14 9 0.15
16 1 0.02
18 1 0.02
19 9 0.15
20 40 0.67
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.31
Consensus pattern (19 bp):
TGCGATAGTCAATACGCGT
Found at i:1921595 original size:54 final size:54
Alignment explanation
Indices: 1921515--1921648 Score: 214
Period size: 54 Copynumber: 2.5 Consensus size: 54
1921505 AGTCAATTCG
* * * *
1921515 CGTTGCGATAGTCTAATACGCTTTGCGATTTTCTCGTTGCGACAGTCAAATACC
1 CGTTGCGATAATCAAATTCGCGTTGCGATTTTCTCGTTGCGACAGTCAAATACC
1921569 CGTTGCGATAATCAAATTCGCGTTGCGATTTTCTCGTTGCGACAGTCAAATACC
1 CGTTGCGATAATCAAATTCGCGTTGCGATTTTCTCGTTGCGACAGTCAAATACC
* *
1921623 CATTGCGATAATCAAATTCGTGTTGC
1 CGTTGCGATAATCAAATTCGCGTTGC
1921649 AATAGACAAA
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
54 74 1.00
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (54 bp):
CGTTGCGATAATCAAATTCGCGTTGCGATTTTCTCGTTGCGACAGTCAAATACC
Found at i:1921681 original size:54 final size:54
Alignment explanation
Indices: 1921623--1921779 Score: 226
Period size: 54 Copynumber: 2.9 Consensus size: 54
1921613 GTCAAATACC
* * * *
1921623 CATTGCGATAATCAAATTCGTGTTGCAATAGACAAATTTACGTTGTGATTTTTG
1 CATTGCGATAATCAAATTCGTGTTGCGATAGTCAAATTCACGTTGCGATTTTTG
* *
1921677 CATTGCGATAGTCATATTCGTGTTGCGATAGTCAAATTCACGTTGCGATTTTTG
1 CATTGCGATAATCAAATTCGTGTTGCGATAGTCAAATTCACGTTGCGATTTTTG
* *
1921731 -AGTTGCGATAATCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGAT
1 CA-TTGCGATAATCAAATTCGTGTTGCGATAGTCAAATTCACGTTGCGAT
1921780 ATTCAAATGA
Statistics
Matches: 92, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
53 1 0.01
54 91 0.99
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.36
Consensus pattern (54 bp):
CATTGCGATAATCAAATTCGTGTTGCGATAGTCAAATTCACGTTGCGATTTTTG
Found at i:1921704 original size:20 final size:20
Alignment explanation
Indices: 1921679--1921787 Score: 113
Period size: 20 Copynumber: 5.8 Consensus size: 20
1921669 GATTTTTGCA
* *
1921679 TTGCGATAGTCATATTCGTG
1 TTGCGATAGTCAAATTCGCG
*
1921699 TTGCGATAGTCAAATTCACG
1 TTGCGATAGTCAAATTCGCG
* *
1921719 TTGCGAT--T----TTTGAG
1 TTGCGATAGTCAAATTCGCG
*
1921733 TTGCGATAATCAAATTCGCG
1 TTGCGATAGTCAAATTCGCG
1921753 TTGCGATAGTCAAATTCGCG
1 TTGCGATAGTCAAATTCGCG
*
1921773 TTGCGATATTCAAAT
1 TTGCGATAGTCAAAT
1921788 GAATGTGTAA
Statistics
Matches: 73, Mismatches: 10, Indels: 12
0.77 0.11 0.13
Matches are distributed among these distances:
14 10 0.14
16 1 0.01
18 1 0.01
20 61 0.84
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.36
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCG
Found at i:1922010 original size:140 final size:140
Alignment explanation
Indices: 1921758--1922027 Score: 495
Period size: 140 Copynumber: 1.9 Consensus size: 140
1921748 TCGCGTTGCG
*
1921758 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACATATCA
1 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
* * *
1921823 TAGCAATGTTCAAACTCAAGTTACTAATACATGTCTAATTGAAAATGTTAAAAGTTTACACATAA
66 TAGAAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
1921888 AATACACATA
131 AATACACATA
1921898 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
1 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
*
1921963 TAGAAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAATTTTACACATAA
66 TAGAAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
1922028 TATAACGTTT
Statistics
Matches: 125, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
140 125 1.00
ACGTcount: A:0.43, C:0.14, G:0.13, T:0.30
Consensus pattern (140 bp):
ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
TAGAAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
AATACACATA
Found at i:1925355 original size:20 final size:20
Alignment explanation
Indices: 1925253--1925359 Score: 142
Period size: 20 Copynumber: 5.3 Consensus size: 20
1925243 AAATTCAGTG
* *
1925253 TTGCGACAGTCAGAATCGCG
1 TTGCGATAGTCAGAATCGCA
* *
1925273 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCGCA
*
1925293 TTGCGATAGTCAGAATTGCA
1 TTGCGATAGTCAGAATCGCA
*
1925313 TTGCAATAGTCAGAATCGCA
1 TTGCGATAGTCAGAATCGCA
* *
1925333 TTGCGATAGTCATAATCGTA
1 TTGCGATAGTCAGAATCGCA
1925353 TTGCGAT
1 TTGCGAT
1925360 TTACATATTC
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 77 1.00
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCGCA
Found at i:1925366 original size:20 final size:20
Alignment explanation
Indices: 1925328--1925398 Score: 99
Period size: 20 Copynumber: 3.5 Consensus size: 20
1925318 ATAGTCAGAA
* *
1925328 TCGCATTGCGATAGT-CATAA
1 TCGCATTGCGAT-TTACATAT
*
1925348 TCGTATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
1925368 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
1925388 TCGCATTGCGA
1 TCGCATTGCGA
1925399 ATTAGGAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
19 1 0.02
20 45 0.98
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (20 bp):
TCGCATTGCGATTTACATAT
Found at i:1925419 original size:21 final size:21
Alignment explanation
Indices: 1925395--1925435 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
1925385 TATTCGCATT
1925395 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
*
1925416 GCGAATTTGGAAAATCGCAA
1 GCGAATTAGGAAAATCGCAA
1925436 TGTGATAGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.41, C:0.17, G:0.24, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:1930292 original size:22 final size:21
Alignment explanation
Indices: 1930244--1930319 Score: 104
Period size: 22 Copynumber: 3.7 Consensus size: 21
1930234 TGTTTAGTAT
*
1930244 TCGTCCCGAAGCACCACT--A
1 TCGTCCCGAAGGACCACTGGA
1930263 T-GTCCCGAAGGACCACTGGA
1 TCGTCCCGAAGGACCACTGGA
1930283 TACGTCCCGAAGGACCACTGGA
1 T-CGTCCCGAAGGACCACTGGA
1930305 TTCGTCCCGAAGGAC
1 -TCGTCCCGAAGGAC
1930320 TAATATACCC
Statistics
Matches: 51, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
18 15 0.29
19 1 0.02
20 2 0.04
22 32 0.63
23 1 0.02
ACGTcount: A:0.25, C:0.34, G:0.25, T:0.16
Consensus pattern (21 bp):
TCGTCCCGAAGGACCACTGGA
Found at i:1931772 original size:64 final size:63
Alignment explanation
Indices: 1931661--1931823 Score: 188
Period size: 64 Copynumber: 2.5 Consensus size: 63
1931651 TCCCTTGACG
* * * * *
1931661 GGTGCATCGATGCACTACC-CATGCATCGGTGCATAAATCCTATTCGATGTT-TGTATTTTAAAC
1 GGTGCATCGATGCACT-CCTTATGCATCGATGCATAAATACTAATCGATGTTAT-TAATTTAAA-
1931724 A
63 A
1931725 GGTGCATCGATGCACTCCTTATGCATCGATGCATAAATGAC-AATCGATGTTCAATTAATTTAAA
1 GGTGCATCGATGCACTCCTTATGCATCGATGCATAAAT-ACTAATCGATGTT--ATTAATTTAAA
*
1931789 T
63 A
1931790 GAGTGCATCGATGCACTCCTTATGCATCGATGCA
1 G-GTGCATCGATGCACTCCTTATGCATCGATGCA
1931824 CCTTCAACAA
Statistics
Matches: 87, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
63 2 0.02
64 42 0.48
65 2 0.02
66 40 0.46
67 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (63 bp):
GGTGCATCGATGCACTCCTTATGCATCGATGCATAAATACTAATCGATGTTATTAATTTAAAA
Found at i:1934773 original size:87 final size:87
Alignment explanation
Indices: 1934643--1934813 Score: 209
Period size: 87 Copynumber: 2.0 Consensus size: 87
1934633 TAAAGCAGAA
* * * * * *
1934643 TTTTCCTCTTTTCCAGAATTAACATCAAGAGTTTGATTAAGATTCTTTTCACTTTTATCAAG-AG
1 TTTTCCTCTTTTCCAGAATCAACATCAAGAGCTAGATTAAGATTCTTTACACTATTATC-AGTAA
1934707 TAAGAGTAGATTCAGAATGTAAG
65 TAAGAGTAGATTCAGAATGTAAG
*** * *
1934730 TTTTCCTCTTTTCCAGAATCAACATTGGGAGCTAGATTGAGATTCTTTACACTATTGTCAGTAAT
1 TTTTCCTCTTTTCCAGAATCAACATCAAGAGCTAGATTAAGATTCTTTACACTATTATCAGTAAT
* *
1934795 ATGAGTAGGTTCAGAATGT
66 AAGAGTAGATTCAGAATGT
1934814 TCGATTTCTC
Statistics
Matches: 70, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
86 2 0.03
87 68 0.97
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.39
Consensus pattern (87 bp):
TTTTCCTCTTTTCCAGAATCAACATCAAGAGCTAGATTAAGATTCTTTACACTATTATCAGTAAT
AAGAGTAGATTCAGAATGTAAG
Found at i:1934860 original size:87 final size:87
Alignment explanation
Indices: 1934677--1934860 Score: 194
Period size: 87 Copynumber: 2.1 Consensus size: 87
1934667 TCAAGAGTTT
* * * *
1934677 GATTAAGATTCTTTTCACTTTTATCAAGAGTAAGAGTAGATTCAGAATGTAAGTTTTCCTCTTTT
1 GATTAAGATTCTTTACACTATTATCAAGAATAAGAGTAGATTCAGAATGTAAGTTTTCCTCTTAT
*
1934742 CCAGAATCAACATTGGGAGCTA
66 CCAGAACCAACATTGGGAGCTA
* * * * **
1934764 GATTGAGATTCTTTACACTATTGTC-AGTAATATGAGTAGGTTCAGAATGTTCGATTTCTCCT-T
1 GATTAAGATTCTTTACACTATTATCAAG-AATAAGAGTAGATTCAGAATGTAAG-TTT-TCCTCT
* * *
1934827 TAT-CAGAACCAACATTGGGTGTTG
63 TATCCAGAACCAACATTGGGAGCTA
1934851 GATTAAGATT
1 GATTAAGATT
1934861 TACAGTACTT
Statistics
Matches: 79, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
86 2 0.03
87 67 0.85
88 6 0.08
89 4 0.05
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (87 bp):
GATTAAGATTCTTTACACTATTATCAAGAATAAGAGTAGATTCAGAATGTAAGTTTTCCTCTTAT
CCAGAACCAACATTGGGAGCTA
Found at i:1939248 original size:11 final size:10
Alignment explanation
Indices: 1939229--1939266 Score: 53
Period size: 11 Copynumber: 3.9 Consensus size: 10
1939219 TATCCCTAAA
1939229 AAATAAAAAT
1 AAATAAAAAT
1939239 AAAGTAAAAAT
1 AAA-TAAAAAT
1939250 AAAT--AAAT
1 AAATAAAAAT
1939258 AAATAAAAA
1 AAATAAAAA
1939267 CAAAGAGTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
8 8 0.32
10 7 0.28
11 10 0.40
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:1939248 original size:18 final size:19
Alignment explanation
Indices: 1939225--1939266 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
1939215 AAATTATCCC
1939225 TAAAAAAT-AA-AAATAAA
1 TAAAAAATAAATAAATAAA
1939242 GT-AAAAATAAATAAATAAA
1 -TAAAAAATAAATAAATAAA
1939261 TAAAAA
1 TAAAAA
1939267 CAAAGAGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 6 0.29
18 4 0.19
19 11 0.52
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (19 bp):
TAAAAAATAAATAAATAAA
Found at i:1939695 original size:22 final size:21
Alignment explanation
Indices: 1939663--1939708 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 21
1939653 TGCAAAAATT
1939663 AAAATAATAGTGACTAAATCA
1 AAAATAATAGTGACTAAATCA
*
1939684 AAAACTAATAGTGACTAAATTA
1 AAAA-TAATAGTGACTAAATCA
1939706 AAA
1 AAA
1939709 TAAAACAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.59, C:0.09, G:0.09, T:0.24
Consensus pattern (21 bp):
AAAATAATAGTGACTAAATCA
Found at i:1941261 original size:84 final size:83
Alignment explanation
Indices: 1941105--1941826 Score: 534
Period size: 84 Copynumber: 8.6 Consensus size: 83
1941095 TGTGTCTTTA
* * * * * * * * *
1941105 AGCTGAGTGTAATCGAACCCAAAAGGTCTTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATG
1 AGCTGAGTGAAATCGAACTC-GAAGGTC-TTTGGTGACAGATAACCCTTCTCGACTTAAGCTATA
* * *
1941170 TTACAAATGGCGTGCCTTGG
64 CTGCAAATGACGTGCCTTGG
* * * *
1941190 AGCTGAATGAAATCGAATCTCGAAGGTATTTGGTGACAGATAGCTCTTCTCGACTTAAGCTATAC
1 AGCTGAGTGAAATCGAA-CTCGAAGGTCTTTGGTGACAGATAACCCTTCTCGACTTAAGCTATAC
* ** *
1941255 TGCAAATTATATGCCTTTG
65 TGCAAATGACGTGCCTTGG
* * * * * *
1941274 AGCTAAAT-ATAATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCT-AACCTTGAGTTAT
1 AGCTGAGTGA-AATCGAACTCGAAGGTC-TTTGGTGACAGATAACCCTTCTCGA-CTTAAGCTAT
* * * *
1941337 GCTGCAAATGGCGTGACTTAG
63 ACTGCAAATGACGTGCCTTGG
* ** * * * * * * * * * *
1941358 AACTGACCGTAGTCGAACTCGAAGGTCTTTGGTTGGCATATATCCCTTCTAGCCTTGAGTTATGC
1 AGCTGAGTGAAATCGAACTCGAAGGTCTTTGG-TGACAGATAACCCTTCTCGACTTAAGCTATAC
* *
1941423 TGTAAATGAAGTGCCTTGG
65 TGCAAATGACGTGCCTTGG
* * * * *
1941442 AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGACATATAACACTTCTCGACTTAAGCTATAC
1 AGCTGAGTGAAATCGAACTCGAAGGTCTTTGG-TGACAGATAACCCTTCTCGACTTAAGCTATAC
* *
1941507 TGCAAATGATGTGCCTTTG
65 TGCAAATGACGTGCCTTGG
* * * * * * *
1941526 AGCTGAGT-ATAATCGAACTTGAAGGTCTTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATG
1 AGCTGAGTGA-AATCGAACTCGAAGGTC-TTTGGTGACAGATAACCCTTCTCGACTTAAGCTATA
1941590 CTGCAAATGACGTGCCTTGG
64 CTGCAAATGACGTGCCTTGG
* * * * * * *
1941610 AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAGCACTTTTCGACTTAAGCTATAC
1 AGCTGAGTGAAATCGAACTCGAAGGTCTTTGG-TGACAGATAACCCTTCTCGACTTAAGCTATAC
* * *
1941675 TGCAAATGATGTACCTTTG
65 TGCAAATGACGTGCCTTGG
* * * * * * **
1941694 AGCTGAGT-ATAATCGAACTCAAAGGTCTTTGTTGATAGATAACCCTTCTAGCCTTAAGTTATGT
1 AGCTGAGTGA-AATCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTCGACTTAAGCTATAC
* * **
1941758 TGTAAATGATGTGCCTTTT
65 TGCAAATGACGTGCCTTGG
* * * *
1941777 AGCTGAGTGTAATCAAACTCGAAGGTCTTTTGTTAGCAGATAACCCTTCT
1 AGCTGAGTGAAATCGAACTCGAAGGTCTTTGGTGA-CAGATAACCCTTCT
1941827 TGCCTTGAGT
Statistics
Matches: 502, Mismatches: 121, Indels: 29
0.77 0.19 0.04
Matches are distributed among these distances:
83 85 0.17
84 391 0.78
85 24 0.05
86 2 0.00
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (83 bp):
AGCTGAGTGAAATCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTCGACTTAAGCTATACT
GCAAATGACGTGCCTTGG
Found at i:1941317 original size:168 final size:167
Alignment explanation
Indices: 1941058--1941850 Score: 748
Period size: 168 Copynumber: 4.7 Consensus size: 167
1941048 TGATGTTGGT
* * * * * * ** *
1941058 AGATAATCCTTCTAGCCTTGAGTTATGCTGTAAAAGATGTGTCTTTAAGCTGAGTGTAATCGAAC
1 AGATAACCCTTCTAGCCTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAATCGAAC
* * ** * *
1941123 CCAAAAGGTCTTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGTTACAAATGGCGTGCCTT
66 TC-GAAGGTCTTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATACTGCAAATGACGTGCCTT
* * *
1941188 GGAGCTGAATGA-AATCGAATCTCGAAGGTATTTGGTGAC
130 TGAGCTGAGT-ATAATCGAA-CTCGAAGGTCTTTGGTGAC
* * * * * * * * * ***
1941227 AGATAGCTCTTCTCGACTTAAGCTATACTGCAAATTATATGCCTTTGAGCTAAATATAATCGAAC
1 AGATAACCCTTCTAGCCTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAATCGAAC
* * * * *
1941292 TCGAAGGTCTTTTGTTGACAGATAACCCTTCTAACCTTGAGTTATGCTGCAAATGGCGTGACTTA
66 TCGAAGGTCTTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATACTGCAAATGACGTGCCTTT
* *** * *
1941357 GAACTGACCGTAGTCGAACTCGAAGGTCTTTGGTTGGC
131 GAGCTGAGTATAATCGAACTCGAAGGTCTTTGG-TGAC
* * * * *
1941395 ATATATCCCTTCTAGCCTTGAGTTATGCTGTAAATGA-AGTGCCTTGGAGCTGAGCGTAGTCGAA
1 AGATAACCCTTCTAGCCTTAAGTTATGCTGCAAATGATA-TGCCTTGGAGCTGAGCGTAATCGAA
* * * * * * * *
1941459 CTCGAAGGTCTTTGGTTGACATATAACACTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTT
65 CTCGAAGGTCTTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATACTGCAAATGACGTGCCTT
* *
1941524 TGAGCTGAGTATAATCGAACTTGAAGGTCTTTTGTTGAC
130 TGAGCTGAGTATAATCGAACTCGAAGGTC-TTTGGTGAC
* ** *
1941563 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGACGTGCCTTGGAGCTGAGCGTAGTCGAAC
1 AGATAACCCTTCTAGCCTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAATCGAAC
* * * * * * * * * * *
1941628 TCGAAGGTCTTTGGTTGGCAGATAGCACTTTTCGACTTAAGCTATACTGCAAATGATGTACCTTT
66 TCGAAGGTCTTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATACTGCAAATGACGTGCCTTT
* * *
1941693 GAGCTGAGTATAATCGAACTCAAAGGTCTTTGTTGAT
131 GAGCTGAGTATAATCGAACTCGAAGGTCTTTGGTGAC
* * * ** * *
1941730 AGATAACCCTTCTAGCCTTAAGTTATGTTGTAAATGATGTGCCTTTTAGCTGAGTGTAATCAAAC
1 AGATAACCCTTCTAGCCTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAATCGAAC
*
1941795 TCGAAGGTCTTTTGTT-AGCAGATAACCCTTCTTGCCTTGAGTTA-AGCTGCAAATGA
66 TCGAAGGTCTTTTGTTGA-CAGATAACCCTTCTAGCCTTGAGTTATA-CTGCAAATGA
1941851 GCACGATATC
Statistics
Matches: 519, Mismatches: 98, Indels: 16
0.82 0.15 0.03
Matches are distributed among these distances:
166 1 0.00
167 123 0.24
168 342 0.66
169 53 0.10
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (167 bp):
AGATAACCCTTCTAGCCTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAATCGAAC
TCGAAGGTCTTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATACTGCAAATGACGTGCCTTT
GAGCTGAGTATAATCGAACTCGAAGGTCTTTGGTGAC
Found at i:1941439 original size:252 final size:251
Alignment explanation
Indices: 1941030--1941850 Score: 928
Period size: 252 Copynumber: 3.3 Consensus size: 251
1941020 AGATGAATGA
* * * ** * * *
1941030 AATCGAACTCAAAAGTCTTGATGTTGGTAGATAATCCTTCTAGCCTTGAGTTATGCTGTAAAAGA
1 AATCGAACTCGAAGGTCTT-TTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGA
* * * ** * * * * *
1941095 TGTGTCTTTA-AGCTGAGTGTAATCGAACCCAAAAGGTCTTTTGTTGACAGATAACCCTTCTAGC
65 CGTGAC-TTAGAACTGACCGTAGTCGAACTC-GAAGGTCTTTGGTTGGCAGATAACCCTTCTAGC
* * ** * *
1941159 CTTGAGTTATGTTACAAATGGCGTGCCTTGGAGCTGAATGAAATCGAATCTCGAAGGTATTTGGT
128 CTTGAGTTATGCTGCAAATGAAGTGCCTTGGAGCTGAGTGAAATCGAA-CTCGAAGGTCTTTGGT
* * * * * *
1941224 GACAGATAGCTCTTCTCGACTTAAGCTATACTGCAAATTATATGCCTTTGAGCTAAATAT
192 GACAGATAACACTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTTGAGCTGAGTAT
* *
1941284 AATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTAACCTTGAGTTATGCTGCAAATGGC
1 AATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGAC
* *
1941349 GTGACTTAGAACTGACCGTAGTCGAACTCGAAGGTCTTTGGTTGGCATATATCCCTTCTAGCCTT
66 GTGACTTAGAACTGACCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGCCTT
* * * *
1941414 GAGTTATGCTGTAAATGAAGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGAC
131 GAGTTATGCTGCAAATGAAGTGCCTTGGAGCTGAGTGAAATCGAACTCGAAGGTCTTTGG-TGAC
*
1941479 ATATAACACTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTTGAGCTGAGTAT
195 AGATAACACTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTTGAGCTGAGTAT
*
1941536 AATCGAACTTGAAGGTCTTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGAC
1 AATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGAC
* * * * * * * * *
1941601 GTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAGCACTTTTCGACTT
66 GTGACTTAGAACTGACCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGCCTT
* * * * * * * * *
1941666 AAGCTATACTGCAAATGATGTACCTTTGAGCTGAGT-ATAATCGAACTCAAAGGTCTTTGTTGAT
131 GAGTTATGCTGCAAATGAAGTGCCTTGGAGCTGAGTGA-AATCGAACTCGAAGGTCTTTGGTGAC
* * * * ** * * *
1941730 AGATAACCCTTCTAGCCTTAAGTTATGTTGTAAATGATGTGCCTTTTAGCTGAGTGT
195 AGATAACACTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTTGAGCTGAGTAT
* * *
1941787 AATCAAACTCGAAGGTCTTTTGTT-AGCAGATAACCCTTCTTGCCTTGAGTTAAGCTGCAAATGA
1 AATCGAACTCGAAGGTCTTTTGTTGA-CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGA
1941851 GCACGATATC
Statistics
Matches: 484, Mismatches: 79, Indels: 11
0.84 0.14 0.02
Matches are distributed among these distances:
250 1 0.00
251 122 0.25
252 288 0.60
253 56 0.12
254 17 0.04
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (251 bp):
AATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGAC
GTGACTTAGAACTGACCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGCCTT
GAGTTATGCTGCAAATGAAGTGCCTTGGAGCTGAGTGAAATCGAACTCGAAGGTCTTTGGTGACA
GATAACACTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTTGAGCTGAGTAT
Found at i:1942066 original size:121 final size:121
Alignment explanation
Indices: 1941852--1942072 Score: 345
Period size: 121 Copynumber: 1.8 Consensus size: 121
1941842 TGCAAATGAG
* * * *
1941852 CACGATATCCTTCGTCGTGGAGTTGAAATCGTGAATGACCCATTCATTGTGAAGTTGAGCCTCGA
1 CACGATATCCTTCGTCGTGAAGTTAAAATCGTGAATGACCCATTCATCGTGAAGTTGAACCTCGA
1941917 ATTGGATATCCTTCATCATGAAGTTGAAATCCAAGGGTTGCATTGTTGCTGGTGGA
66 ATTGGATATCCTTCATCATGAAGTTGAAATCCAAGGGTTGCATTGTTGCTGGTGGA
* * * *
1941973 CACGATATCCTTCGTCGTGAAGTTAAAATCGTGGATGACCCTTTCGTCGTGAAGTTGAACCTTGA
1 CACGATATCCTTCGTCGTGAAGTTAAAATCGTGAATGACCCATTCATCGTGAAGTTGAACCTCGA
*
1942038 ATTGGATATCCTTCGTCGA-GAAGTTGAAATCCAAG
66 ATTGGATATCCTTCATC-ATGAAGTTGAAATCCAAG
1942073 TTAAGTTGCA
Statistics
Matches: 90, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
121 89 0.99
122 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (121 bp):
CACGATATCCTTCGTCGTGAAGTTAAAATCGTGAATGACCCATTCATCGTGAAGTTGAACCTCGA
ATTGGATATCCTTCATCATGAAGTTGAAATCCAAGGGTTGCATTGTTGCTGGTGGA
Found at i:1942347 original size:43 final size:43
Alignment explanation
Indices: 1942219--1942347 Score: 143
Period size: 43 Copynumber: 3.0 Consensus size: 43
1942209 TAGATGTTGC
* * * * *
1942219 TTGTGTGTACGAT-TCCCTTCGTCATGAAGTTGAAACCGTGGAT
1 TTGTGGGTACGATAT-CCTCCGTCGTGGAGTTGAAATCGTGGAT
* * * * *
1942262 GTGTGGGCATGATATCCTCCGTCGTGGAGTTAAAATCATGGAT
1 TTGTGGGTACGATATCCTCCGTCGTGGAGTTGAAATCGTGGAT
*
1942305 TTGTGGGTACGATATCCTCCGTCGTGGAGTTGAAATTGTGGAT
1 TTGTGGGTACGATATCCTCCGTCGTGGAGTTGAAATCGTGGAT
1942348 GGCCCCTTCG
Statistics
Matches: 69, Mismatches: 16, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
43 68 0.99
44 1 0.01
ACGTcount: A:0.21, C:0.16, G:0.29, T:0.33
Consensus pattern (43 bp):
TTGTGGGTACGATATCCTCCGTCGTGGAGTTGAAATCGTGGAT
Found at i:1942603 original size:43 final size:42
Alignment explanation
Indices: 1942556--1942692 Score: 168
Period size: 43 Copynumber: 3.2 Consensus size: 42
1942546 AAATTAAAAC
* * *
1942556 CGTGGATGTATGGGCACGATAACCTTTGTTGTGGAGTTGAAAT
1 CGTGGATGTAT-GGTACGATATCCTCTGTTGTGGAGTTGAAAT
* * *
1942599 CGTGGATTTATTGGTACGATATCCTCCGTCGTGGAGTTGAAAT
1 CGTGGATGTA-TGGTACGATATCCTCTGTTGTGGAGTTGAAAT
*
1942642 CGTGGATTCGT-TGGTACGATATCCTCTGTTATGGAGTTGAAAT
1 CGTGGA-T-GTATGGTACGATATCCTCTGTTGTGGAGTTGAAAT
1942685 CGTGGATG
1 CGTGGATG
1942693 ACCCATTCGT
Statistics
Matches: 81, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 76 0.94
44 2 0.02
45 1 0.01
ACGTcount: A:0.21, C:0.14, G:0.31, T:0.34
Consensus pattern (42 bp):
CGTGGATGTATGGTACGATATCCTCTGTTGTGGAGTTGAAAT
Found at i:1942636 original size:301 final size:303
Alignment explanation
Indices: 1942047--1942648 Score: 859
Period size: 301 Copynumber: 2.0 Consensus size: 303
1942037 AATTGGATAT
*
1942047 CCTTCGTCGAGAAGTTGAAATCCAAGTTAAGTTGCATTGTTTCGAGGCCAATATCCTTCGCCGTG
1 CCTTCGTCGAGAAGTTGAAATCCAAGTT-AGTTG-ATTGTTTCGAGGCCAATATCATTCGCCGTG
* * *
1942112 AAGTTGAATTTGACTCTGAAACTGGAAAGTTTATTGACAAACACTCCCTCTCTGAGTTGGATATC
64 AAGTTGAAATTGACTCTGAAACTAGAAAGTTTATTGACAAACACTCACTCTCTGAGTTGGATATC
* * * *
1942177 ATTCGTCGTGAAGTTGAAATCCAATCTAGAGATAGATGTTGCTTGTGTGTACGATTCCCTTCGTC
129 ATTCGTCGTGAAGTTGAAATCCAATCAAGAGATAGATGTTGCTCGCGTATACGATTCCCTTCGTC
* * * * *
1942242 ATGAAGTTGAAACCGTGGATGTGTGGGCATGATATCCTCCGTCGTGGAGTTAAAATCATGGATTT
194 ATGAAATTAAAACCGTGGATGTATGGGCACGATAACCTCCGTCGTGGAGTTAAAATCATGGATTT
* *
1942307 GTGGGTACGATATCCTCCGTCGTGGAGTTGAAATTGTGGATGGCC
259 ATGGGTACGATATCCTCCGTCGTGGAGTTGAAATCGTGGATGGCC
* * * *
1942352 CCTTCGTCGTGAAGTTGAAATCCAAGCTT-G-TG-TTGTTTTGAGTCCAATATCATTTGCCGTGA
1 CCTTCGTCGAGAAGTTGAAATCCAAG-TTAGTTGATTGTTTCGAGGCCAATATCATTCGCCGTGA
* * * * *
1942414 AGTTGAAATTGGCTCTGAAACTAGAAAGTTTATTGACAGACACTCATTCTTTGAGTTGGATATCC
65 AGTTGAAATTGACTCTGAAACTAGAAAGTTTATTGACAAACACTCACTCTCTGAGTTGGATATCA
* **
1942479 TTCGTCGTGAAGTTGAAATCCAATCAAGAGATGGATGTTGCTCGCGTATACGATTCCCTTCGTTG
130 TTCGTCGTGAAGTTGAAATCCAATCAAGAGATAGATGTTGCTCGCGTATACGATTCCCTTCGTCA
** * * *
1942544 TGAAATTAAAACCGTGGATGTATGGGCACGATAACCTTTGTTGTGGAGTTGAAATCGTGGATTTA
195 TGAAATTAAAACCGTGGATGTATGGGCACGATAACCTCCGTCGTGGAGTTAAAATCATGGATTTA
*
1942609 TTGGTACGATATCCTCCGTCGTGGAGTTGAAATCGTGGAT
260 TGGGTACGATATCCTCCGTCGTGGAGTTGAAATCGTGGAT
1942649 TCGTTGGTAC
Statistics
Matches: 263, Mismatches: 33, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
301 233 0.89
303 2 0.01
304 1 0.00
305 25 0.10
306 2 0.01
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (303 bp):
CCTTCGTCGAGAAGTTGAAATCCAAGTTAGTTGATTGTTTCGAGGCCAATATCATTCGCCGTGAA
GTTGAAATTGACTCTGAAACTAGAAAGTTTATTGACAAACACTCACTCTCTGAGTTGGATATCAT
TCGTCGTGAAGTTGAAATCCAATCAAGAGATAGATGTTGCTCGCGTATACGATTCCCTTCGTCAT
GAAATTAAAACCGTGGATGTATGGGCACGATAACCTCCGTCGTGGAGTTAAAATCATGGATTTAT
GGGTACGATATCCTCCGTCGTGGAGTTGAAATCGTGGATGGCC
Found at i:1942969 original size:64 final size:64
Alignment explanation
Indices: 1942889--1943019 Score: 208
Period size: 64 Copynumber: 2.0 Consensus size: 64
1942879 GAGCAAATTG
* *
1942889 TGAGTTCAATATCCTTCGCTGTGAAGTTAAAATTGACTCTGAATGAAACTGGAAAATTGTTTGT
1 TGAGTACAATATCCTTCACTGTGAAGTTAAAATTGACTCTGAATGAAACTGGAAAATTGTTTGT
* * * *
1942953 TGAGTACAATATCCTTCACTGTGAAGTTGAAATTGACTCTGAATGAAATTGTAAAGTTGTTTGT
1 TGAGTACAATATCCTTCACTGTGAAGTTAAAATTGACTCTGAATGAAACTGGAAAATTGTTTGT
1943017 TGA
1 TGA
1943020 CAGACGCTCA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 61 1.00
ACGTcount: A:0.31, C:0.11, G:0.21, T:0.37
Consensus pattern (64 bp):
TGAGTACAATATCCTTCACTGTGAAGTTAAAATTGACTCTGAATGAAACTGGAAAATTGTTTGT
Found at i:1944389 original size:21 final size:20
Alignment explanation
Indices: 1944348--1944391 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
1944338 GCTTATTGTC
1944348 TTTATTTTTTTCTTTACTTTT
1 TTTATTTTTTTCTTTA-TTTT
1944369 TTTATTTTTATTCCTTT-TTTT
1 TTTATTTTT-TT-CTTTATTTT
1944390 TT
1 TT
1944392 CTGATTGGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 15 0.71
22 2 0.10
23 4 0.19
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.82
Consensus pattern (20 bp):
TTTATTTTTTTCTTTATTTT
Found at i:1944755 original size:20 final size:20
Alignment explanation
Indices: 1944730--1944775 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
1944720 TTTCTGCTTC
*
1944730 TTGCTCCCGGCATGCCTCAA
1 TTGCTCCCGACATGCCTCAA
*
1944750 TTGCTCCCGATATGCCTCAA
1 TTGCTCCCGACATGCCTCAA
1944770 TTGCTC
1 TTGCTC
1944776 AGGTTCGTCC
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:0.15, C:0.37, G:0.17, T:0.30
Consensus pattern (20 bp):
TTGCTCCCGACATGCCTCAA
Found at i:1946410 original size:16 final size:17
Alignment explanation
Indices: 1946389--1946421 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
1946379 AATAAAAGTC
1946389 CTACCCCACATG-TTAT
1 CTACCCCACATGCTTAT
1946405 CTACCCCACATGCTTAT
1 CTACCCCACATGCTTAT
1946422 TATTCCTACC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.24, C:0.39, G:0.06, T:0.30
Consensus pattern (17 bp):
CTACCCCACATGCTTAT
Found at i:1948233 original size:22 final size:21
Alignment explanation
Indices: 1948201--1948246 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 21
1948191 TGCAAAAATT
1948201 AAAATAATAGTGACTAAATCA
1 AAAATAATAGTGACTAAATCA
*
1948222 AAAACTAATAGTGACTAAATTA
1 AAAA-TAATAGTGACTAAATCA
1948244 AAA
1 AAA
1948247 TAAAACAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.59, C:0.09, G:0.09, T:0.24
Consensus pattern (21 bp):
AAAATAATAGTGACTAAATCA
Found at i:1948358 original size:17 final size:17
Alignment explanation
Indices: 1948336--1948369 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1948326 GGGTATGAAC
1948336 ACAAGTAACCCTAAAAT
1 ACAAGTAACCCTAAAAT
*
1948353 ACAAGTAACCCTGAAAT
1 ACAAGTAACCCTAAAAT
1948370 TAATACTACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.24, G:0.09, T:0.18
Consensus pattern (17 bp):
ACAAGTAACCCTAAAAT
Found at i:1956940 original size:22 final size:22
Alignment explanation
Indices: 1956915--1956961 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
1956905 TGTTTTTTTT
*
1956915 CTTTCGAATAGAAAAATAATTG
1 CTTTCGAATAGAAAAATAATAG
* *
1956937 CTTTCGAATAGGAAATTAATAG
1 CTTTCGAATAGAAAAATAATAG
1956959 CTT
1 CTT
1956962 CTGAAAACGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.34
Consensus pattern (22 bp):
CTTTCGAATAGAAAAATAATAG
Found at i:1963563 original size:2 final size:2
Alignment explanation
Indices: 1963556--1963580 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1963546 CTTAATCTTT
1963556 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 T
1963581 CAATTTTTAA
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:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1968070 original size:31 final size:31
Alignment explanation
Indices: 1968035--1968093 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
1968025 AACTTAAAAG
*
1968035 AGTTTTGCAATACTGAAATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
*
1968066 AGTTTTATAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
1968094 CCATACAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.44
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:1968142 original size:22 final size:22
Alignment explanation
Indices: 1968117--1968392 Score: 446
Period size: 22 Copynumber: 12.5 Consensus size: 22
1968107 ATAATAAAAT
1968117 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
1968139 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
* *
1968161 TTTTAAAATCAATCAATCTATA
1 TTTTAAAATAAATCAATCCATA
1968183 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
1968205 TTTTAAAATAAATCAATCTATA
1 TTTTAAAATAAATCAATCCATA
1968227 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
1968249 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
1968271 TTTTAAAATAAATCATTCCATA
1 TTTTAAAATAAATCAATCCATA
*
1968293 TTTTAAAATAAATCATTCCATA
1 TTTTAAAATAAATCAATCCATA
** *
1968315 TTTTAAAATAAAAT-TTTTCATA
1 TTTTAAAAT-AAATCAATCCATA
**
1968337 TTTTAAAATAAATCAATTTATA
1 TTTTAAAATAAATCAATCCATA
1968359 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
1968381 TTTTAAAATAAA
1 TTTTAAAATAAA
1968393 ATTTTAAAAT
Statistics
Matches: 238, Mismatches: 14, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
21 4 0.02
22 230 0.97
23 4 0.02
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (22 bp):
TTTTAAAATAAATCAATCCATA
Found at i:1969154 original size:28 final size:28
Alignment explanation
Indices: 1969122--1969175 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
1969112 GAGAGCCAAC
* *
1969122 TAAAAGTTT-AGTGACTACAATGAAAATT
1 TAAAAGTTTGAAT-ACTAAAATGAAAATT
1969150 TAAAAGTTTGAATACTAAAATGAAAA
1 TAAAAGTTTGAATACTAAAATGAAAA
1969176 CATTCTATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 21 0.91
29 2 0.09
ACGTcount: A:0.52, C:0.06, G:0.13, T:0.30
Consensus pattern (28 bp):
TAAAAGTTTGAATACTAAAATGAAAATT
Found at i:1970724 original size:20 final size:18
Alignment explanation
Indices: 1970699--1970772 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 18
1970689 TACTAGGGGA
1970699 GTATCGATACCAATGTGAAG
1 GTATCGATACC-ATGT-AAG
1970719 GTATCGATACCATAGTATAG
1 GTATCGATACCAT-GTA-AG
1970739 TAGTATCGATACCATGTTAAGG
1 --GTATCGATACCATG-TAA-G
1970761 GTATCGATACCA
1 GTATCGATACCA
1970773 GATAACATCA
Statistics
Matches: 48, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
19 3 0.06
20 27 0.56
21 2 0.04
22 16 0.33
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (18 bp):
GTATCGATACCATGTAAG
Found at i:1972433 original size:29 final size:30
Alignment explanation
Indices: 1972400--1972458 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
1972390 AGGGCTATAA
1972400 ATTTTAATATTT-TATATTTTAATC-CTATT
1 ATTTTAAT-TTTATATATTTTAATCACTATT
* *
1972429 ATTTTAATTTTATATGTTTTAGTCACTATT
1 ATTTTAATTTTATATATTTTAATCACTATT
1972459 TAATTGCAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 3 0.12
29 18 0.69
30 5 0.19
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.61
Consensus pattern (30 bp):
ATTTTAATTTTATATATTTTAATCACTATT
Found at i:1974925 original size:43 final size:44
Alignment explanation
Indices: 1974858--1974942 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 44
1974848 TGGCTTTAGA
* *
1974858 GAAGTTAGGAGGGAAAGTTATCCCCTATATGT-AAAGTTTTGCT
1 GAAGTTAGGACGGAAAGATATCCCCTATATGTAAAAGTTTTGCT
* *
1974901 GAAGTTAGGACTGAAAGATGTCCCCTATATGTAAAAGTTTTG
1 GAAGTTAGGACGGAAAGATATCCCCTATATGTAAAAGTTTTG
1974943 TTTGATGCAC
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
43 28 0.76
44 9 0.24
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.32
Consensus pattern (44 bp):
GAAGTTAGGACGGAAAGATATCCCCTATATGTAAAAGTTTTGCT
Found at i:1975229 original size:14 final size:14
Alignment explanation
Indices: 1975191--1975229 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
1975181 ATTTTAAATA
*
1975191 ATTTACATTTACAT
1 ATTTACATTTGCAT
*
1975205 TTTTACATTTGCAT
1 ATTTACATTTGCAT
1975219 ATTTACATTTG
1 ATTTACATTTG
1975230 GAATCTTTGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.28, C:0.13, G:0.05, T:0.54
Consensus pattern (14 bp):
ATTTACATTTGCAT
Found at i:1978647 original size:165 final size:165
Alignment explanation
Indices: 1978375--1978671 Score: 461
Period size: 165 Copynumber: 1.8 Consensus size: 165
1978365 AGGCTGAAGG
*
1978375 GATCCAAGCTCGATTTGATCAATTAAACCTTATTGATGAGATGAGATTGAAAGCTATTTTCCATG
1 GATCCAAGCTCGATTTGATCAATTAAACCTTATTGATGAGATGAGATTGAAAGCTATTTGCCATG
*
1978440 GGCAGATATATCAAAAACGGATGATGAAAGATCATAACAAGAAAGTACATCCAAGAGAGTTCCAA
66 GGCAGATATATCAAAAACGGATGATGAAAGATCACAACAAGAAAGTACATCCAAGAGAGTTCCAA
1978505 GATGTTGATCTAGTGCTAAAAAAGGAGACTGGATA
131 GATGTTGATCTAGTGCTAAAAAAGGAGACTGGATA
* * * *
1978540 GATCCAAGCTTGATTTGATCAATTAAGCTTTATTGATGAGAATG-TATTGAAAGCTATTTGCCAT
1 GATCCAAGCTCGATTTGATCAATTAAACCTTATTGATGAG-ATGAGATTGAAAGCTATTTGCCAT
* * * ** **
1978604 GGTCAGATGTATCAGAAGTGGATGATGAAAGATCACAACAAGAAAGTACATCTGAGAGAGTTCCA
65 GGGCAGATATATCAAAAACGGATGATGAAAGATCACAACAAGAAAGTACATCCAAGAGAGTTCCA
1978669 AGA
130 AGA
1978672 GAGCGATCTA
Statistics
Matches: 118, Mismatches: 13, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
165 115 0.97
166 3 0.03
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.27
Consensus pattern (165 bp):
GATCCAAGCTCGATTTGATCAATTAAACCTTATTGATGAGATGAGATTGAAAGCTATTTGCCATG
GGCAGATATATCAAAAACGGATGATGAAAGATCACAACAAGAAAGTACATCCAAGAGAGTTCCAA
GATGTTGATCTAGTGCTAAAAAAGGAGACTGGATA
Found at i:1978915 original size:37 final size:38
Alignment explanation
Indices: 1978864--1978936 Score: 139
Period size: 37 Copynumber: 1.9 Consensus size: 38
1978854 TATTATGCTT
1978864 GAAAAAAAGGAAAAAAAGAAGGAAAAAAGGAAAAAAAA
1 GAAAAAAAGGAAAAAAAGAAGGAAAAAAGGAAAAAAAA
1978902 GAAAAAAA-GAAAAAAAGAAGGAAAAAAGGAAAAAA
1 GAAAAAAAGGAAAAAAAGAAGGAAAAAAGGAAAAAA
1978937 GAAAAGAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
37 27 0.77
38 8 0.23
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (38 bp):
GAAAAAAAGGAAAAAAAGAAGGAAAAAAGGAAAAAAAA
Found at i:1978945 original size:20 final size:19
Alignment explanation
Indices: 1978866--1978948 Score: 98
Period size: 20 Copynumber: 4.3 Consensus size: 19
1978856 TTATGCTTGA
*
1978866 AAAAAAGGAAAAAAAGAAGG
1 AAAAAAGGAAAAAAA-AAAG
1978886 AAAAAAGG--AAAAAAAAG
1 AAAAAAGGAAAAAAAAAAG
* *
1978903 AAAAAAAGAAAAAAAGAAGG
1 AAAAAAGGAAAAAAA-AAAG
1978923 AAAAAAGGAAAAAAGAAAAG
1 AAAAAAGGAAAAAA-AAAAG
1978943 AAAAAA
1 AAAAAA
1978949 ATTGAACCAA
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
17 10 0.19
18 5 0.09
19 5 0.09
20 33 0.61
21 1 0.02
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (19 bp):
AAAAAAGGAAAAAAAAAAG
Found at i:1978946 original size:29 final size:29
Alignment explanation
Indices: 1978864--1978948 Score: 113
Period size: 29 Copynumber: 3.0 Consensus size: 29
1978854 TATTATGCTT
*
1978864 GAAAAAAAGGAAAAAAAGAAGGAAAAAAG
1 GAAAAAAAGGAAAAAAAGAAAGAAAAAAG
*
1978893 GAAAAAAAAGAAAAAAAGAAA-AAAAGAAG
1 GAAAAAAAGGAAAAAAAGAAAGAAAA-AAG
1978922 G-AAAAAAGG-AAAAAAGAAAAGAAAAAA
1 GAAAAAAAGGAAAAAAAG-AAAGAAAAAA
1978949 ATTGAACCAA
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
27 7 0.14
28 16 0.32
29 27 0.54
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (29 bp):
GAAAAAAAGGAAAAAAAGAAAGAAAAAAG
Found at i:1978949 original size:8 final size:8
Alignment explanation
Indices: 1978864--1978941 Score: 66
Period size: 8 Copynumber: 8.6 Consensus size: 8
1978854 TATTATGCTT
1978864 GAAAAAAA
1 GAAAAAAA
1978872 GGAAAAAAA
1 -GAAAAAAA
1978881 GAAGGAAAAAA
1 G-A--AAAAAA
1978892 GGAAAAAAAA
1 -G-AAAAAAA
1978902 GAAAAAAA
1 GAAAAAAA
1978910 GAAAAAAA
1 GAAAAAAA
1978918 GAAGGAAAAAA
1 G-A--AAAAAA
*
1978929 GGAAAAAA
1 GAAAAAAA
1978937 GAAAA
1 GAAAA
1978942 GAAAAAAATT
Statistics
Matches: 60, Mismatches: 2, Indels: 15
0.78 0.03 0.19
Matches are distributed among these distances:
8 27 0.45
9 11 0.18
10 6 0.10
11 13 0.22
12 3 0.05
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (8 bp):
GAAAAAAA
Found at i:1983698 original size:22 final size:22
Alignment explanation
Indices: 1983670--1983724 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
1983660 ATCTACATTC
1983670 TTCAAAGATGATAAATTCTCTT
1 TTCAAAGATGATAAATTCTCTT
* *
1983692 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAAATTCTCTT
*
1983714 TTCGAAGATGA
1 TTCAAAGATGA
1983725 AAGCTTTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAAATTCTCTT
Found at i:1984528 original size:76 final size:76
Alignment explanation
Indices: 1984402--1984574 Score: 249
Period size: 76 Copynumber: 2.3 Consensus size: 76
1984392 CTATTTCCCA
* *
1984402 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAACCCTTCGGGAGCTTTTTGATATTTTC-A
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAACCCTTCGAGAGCTTTTAGATATTTTCAA
*
1984466 AAGCCTTAGGGT
66 AAG-CTTAGAGT
* * *
1984478 CATCTATAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTAGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAACCCTTCGAGAGCTTTTAGATATTTTCAA
*
1984543 AAGCTTCGAGT
66 AAGCTTAGAGT
* *
1984554 CAGCTGTAAGCCCTACAGTGC
1 CATCTGTAAGTCCTACAGTGC
1984575 GGAATGTTTT
Statistics
Matches: 86, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
76 82 0.95
77 4 0.05
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.32
Consensus pattern (76 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAACCCTTCGAGAGCTTTTAGATATTTTCAA
AAGCTTAGAGT
Found at i:1984788 original size:113 final size:113
Alignment explanation
Indices: 1984590--1985121 Score: 730
Period size: 113 Copynumber: 4.7 Consensus size: 113
1984580 GTTTTTTTAA
* *
1984590 AACATTTCCAG-AAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAATAATAAGTTCATAAT
1 AACATTTCCAGAAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
1984654 TAGAAGAACTTGTTCAAACTTTTCGCTTAAATTCATCATTCGATGGATC
66 TAGAAGAACTTGTTCAAACTTTT-GCTTAAATTCATCATTCGATGGATC
*
1984703 AACATTTCCA-AAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAATAAGTTCATAAT
1 AACATTTCCAGAAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
*
1984767 TACAAGAACTTGTTCAAACTTTTCGCTTAAATTCATCATTCGATGGATC
66 TAGAAGAACTTGTTCAAACTTTT-GCTTAAATTCATCATTCGATGGATC
* * **
1984816 AGCATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
1 AACATTTCCAGAAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
* * ** * *
1984881 TAGAAGAATTTGTTCAACCTTTTGCTCGAATTCATCACTCGGTGGATC
66 TAGAAGAACTTGTTCAAACTTTTGCTTAAATTCATCATTCGATGGATC
* * * ** * * *
1984929 AGCAGTGCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGAAAAAAGAAAGAAGAAATTCATAA
1 AACATTTCCAGAAAGAGTTCATAATGAGAAGAACTCATCTG-AAGAAGGAAGAAGAAGTTCATAA
* * * *
1984994 TGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCACTT-GATGGATC
65 TTAGAAGAACTTGTTCAAACTTTTGCTTAAATTCATCA-TTCGATGGATC
*
1985043 AACTTTTCCAGAGAA-AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAA
1 AACATTTCCAGA-AAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAA
* *
1985107 TGAGAAGAGCTTGTT
65 TTAGAAGAACTTGTT
1985122 TGACCTTTTA
Statistics
Matches: 378, Mismatches: 36, Indels: 10
0.89 0.08 0.02
Matches are distributed among these distances:
113 211 0.56
114 165 0.44
115 2 0.01
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (113 bp):
AACATTTCCAGAAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
TAGAAGAACTTGTTCAAACTTTTGCTTAAATTCATCATTCGATGGATC
Found at i:1985130 original size:227 final size:227
Alignment explanation
Indices: 1984590--1985130 Score: 741
Period size: 227 Copynumber: 2.4 Consensus size: 227
1984580 GTTTTTTTAA
* *
1984590 AACATTTCCAGA-AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAATAATAAGTTCATAAT
1 AACATTTCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
* * * * *
1984654 TAGAAGAACTTGTTCAAACTTTTCGCTTAAATTCATCATTCGATGGATCAACATTTCCAAAAGAG
66 TAGAAGAACTTGTTCAACCTTTTCGCTCAAATTCATCACTCGATGGATCAACAGTGCCAAAAGAG
* * * * *
1984719 TTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAATAAGTTCATAATTACAAGAACTTGTTCAA
131 TTCATAATGAGAAGAACTCATCTGAAAAAGAAAGAAGAAATTCATAATGACAAGAACTTGTTCAA
1984784 ACTTTTCGCTTAAATTCATCATTCGATGGATC
196 ACTTTTCGCTTAAATTCATCATTCGATGGATC
* *
1984816 AGCATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAA
1 AACATTTCCAGAG-AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAA
* * * * **
1984880 TTAGAAGAATTTGTTCAACCTTTT-GCTCGAATTCATCACTCGGTGGATCAGCAGTGCCAGTTAG
65 TTAGAAGAACTTGTTCAACCTTTTCGCTCAAATTCATCACTCGATGGATCAACAGTGCCA-AAAG
* *
1984944 AGTTCATAATGAGAAGAACTCATCTGAAAAAAGAAAGAAGAAATTCATAATGAGAAGAATTTGTT
129 AGTTCATAATGAGAAGAACTCATCTG-AAAAAGAAAGAAGAAATTCATAATGACAAGAACTTGTT
* *
1985009 CAACCTTTT-GTTTAAATTCATCACTT-GATGGATC
193 CAAACTTTTCGCTTAAATTCATCA-TTCGATGGATC
* *
1985043 AACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
1 AACATTTCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
* * **
1985108 GAGAAGAGCTTGTTTGACCTTTT
66 TAGAAGAACTTGTTCAACCTTTT
1985131 ACATGACTCT
Statistics
Matches: 276, Mismatches: 33, Indels: 11
0.86 0.10 0.03
Matches are distributed among these distances:
226 37 0.13
227 197 0.71
228 42 0.15
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (227 bp):
AACATTTCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
TAGAAGAACTTGTTCAACCTTTTCGCTCAAATTCATCACTCGATGGATCAACAGTGCCAAAAGAG
TTCATAATGAGAAGAACTCATCTGAAAAAGAAAGAAGAAATTCATAATGACAAGAACTTGTTCAA
ACTTTTCGCTTAAATTCATCATTCGATGGATC
Found at i:1986299 original size:15 final size:15
Alignment explanation
Indices: 1986279--1986311 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
1986269 GGCCAGCAAT
1986279 AGAGTTAACGGCGAC
1 AGAGTTAACGGCGAC
*
1986294 AGAGTTAACGGCGGC
1 AGAGTTAACGGCGAC
1986309 AGA
1 AGA
1986312 CGACTGCCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.33, C:0.18, G:0.36, T:0.12
Consensus pattern (15 bp):
AGAGTTAACGGCGAC
Found at i:1986402 original size:31 final size:31
Alignment explanation
Indices: 1986366--1986436 Score: 124
Period size: 31 Copynumber: 2.3 Consensus size: 31
1986356 AGAGAGAGGC
*
1986366 GAGAGATAAATCTCTCTCTCTCAGTTCTAGA
1 GAGAGAGAAATCTCTCTCTCTCAGTTCTAGA
*
1986397 GAGAGAGAAATCTCTCTCTCTTAGTTCTAGA
1 GAGAGAGAAATCTCTCTCTCTCAGTTCTAGA
1986428 GAGAGAGAA
1 GAGAGAGAA
1986437 GAAATGAAGG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.28
Consensus pattern (31 bp):
GAGAGAGAAATCTCTCTCTCTCAGTTCTAGA
Found at i:1986935 original size:29 final size:30
Alignment explanation
Indices: 1986902--1986960 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
1986892 AGGGCTGTAA
1986902 ATTTTAATATTT-TATATTTTAATC-CTATT
1 ATTTTAAT-TTTATATATTTTAATCACTATT
* *
1986931 ATTTTAATTTTATATGTTTTAGTCACTATT
1 ATTTTAATTTTATATATTTTAATCACTATT
1986961 TAATTGCAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 3 0.12
29 18 0.69
30 5 0.19
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.61
Consensus pattern (30 bp):
ATTTTAATTTTATATATTTTAATCACTATT
Done.