Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 199 of 328
Found at i:59624147 original size:26 final size:26
Alignment explanation
Indices: 59624068--59624183 Score: 152
Period size: 26 Copynumber: 4.7 Consensus size: 26
59624058 GCTAAAACGG
* *
59624068 TAAGCTCTGACGAGCTGA-AT-T-AG
1 TAAGCTCTTACGAGCTGATATATCAA
* *
59624091 TAAGCTCATACGAGCTGAGA-A-CAA
1 TAAGCTCTTACGAGCTGATATATCAA
59624115 TAAGCTCTTACGAGCTGATATATCAA
1 TAAGCTCTTACGAGCTGATATATCAA
59624141 TAAGCTCTTACGAGCTGATATATCAA
1 TAAGCTCTTACGAGCTGATATATCAA
*
59624167 TAAGCTCATACGAGCTG
1 TAAGCTCTTACGAGCTG
59624184 TGATGAGTCC
Statistics
Matches: 82, Mismatches: 6, Indels: 7
0.86 0.06 0.07
Matches are distributed among these distances:
23 16 0.20
24 20 0.24
25 1 0.01
26 45 0.55
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (26 bp):
TAAGCTCTTACGAGCTGATATATCAA
Found at i:59624181 original size:52 final size:46
Alignment explanation
Indices: 59624068--59624183 Score: 133
Period size: 50 Copynumber: 2.3 Consensus size: 46
59624058 GCTAAAACGG
*
59624068 TAAGCTCTGACGAGCTGAATTAGTAAGCTCATACGAGCTGAGAACAA
1 TAAGCTCT-ACGAGCTGAATTAATAAGCTCATACGAGCTGAGAACAA
* *
59624115 TAAGCTCTTACGAGCTGATATATCAATAAGCTCTTACGAGCTGATATATCAA
1 TAAGCTC-TACGAGCTGA-AT-T-AATAAGCTCATACGAGCTGAGA-A-CAA
59624167 TAAGCTCATACGAGCTG
1 TAAGCTC-TACGAGCTG
59624184 TGATGAGTCC
Statistics
Matches: 59, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
47 16 0.27
48 3 0.05
49 1 0.02
50 19 0.32
51 1 0.02
52 19 0.32
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (46 bp):
TAAGCTCTACGAGCTGAATTAATAAGCTCATACGAGCTGAGAACAA
Found at i:59626374 original size:29 final size:29
Alignment explanation
Indices: 59626341--59626471 Score: 122
Period size: 29 Copynumber: 4.5 Consensus size: 29
59626331 GTGACGAGAT
59626341 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
59626370 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
59626399 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
59626428 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
59626457 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
59626472 GAAATCGAGT
Statistics
Matches: 82, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
28 2 0.02
29 79 0.96
30 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:59634181 original size:29 final size:29
Alignment explanation
Indices: 59634148--59634307 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
59634138 GTGACGAGAT
59634148 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
59634177 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
59634206 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
59634235 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
59634264 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
59634293 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
59634308 GAAATCGAGT
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:59641692 original size:40 final size:40
Alignment explanation
Indices: 59641636--59641803 Score: 184
Period size: 40 Copynumber: 4.2 Consensus size: 40
59641626 CAATTGAATG
* *
59641636 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTG-CTT
59641677 -TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAG-TGCTT
* * *
59641716 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGT-CGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGC-TT
** *
59641756 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTGCTT
59641796 ATATCCGG
1 ATATCCGG
59641804 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 9, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
39 8 0.07
40 98 0.89
41 4 0.04
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGCTT
Found at i:59641769 original size:80 final size:79
Alignment explanation
Indices: 59641636--59641803 Score: 239
Period size: 80 Copynumber: 2.1 Consensus size: 79
59641626 CAATTGAATG
* *
59641636 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGA-TTTATCCGGGCTAAGACCCGAAGGCA
*
59641701 TTCGTGCAAGTTGTT
65 TTCGTGCAAGTGGTT
* *
59641716 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCG-TTATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT-GATT-TATCCGGGCTAAGACCCGAAGGC
**
59641780 ATTCGTGCGTGTGGTT
64 ATTCGTGCAAGTGGTT
59641796 ATATCCGG
1 ATATCCGG
59641804 TTGTATTCCG
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
79 2 0.03
80 76 0.96
81 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATTTATCCGGGCTAAGACCCGAAGGCAT
TCGTGCAAGTGGTT
Found at i:59648533 original size:29 final size:29
Alignment explanation
Indices: 59648501--59648573 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
59648491 CTTCGAGCTC
*
59648501 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
59648530 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
59648559 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
59648574 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:59655813 original size:29 final size:29
Alignment explanation
Indices: 59655763--59655870 Score: 139
Period size: 29 Copynumber: 3.8 Consensus size: 29
59655753 TCTGGTCCAC
*
59655763 CAGGCCCAA-TCACATTTGTATGGCCCAT
1 CAGGCCCAATTCACATTTATATGGCCCAT
* **
59655791 TAGGCCCAATTTGCATTTATATGGCCCAT
1 CAGGCCCAATTCACATTTATATGGCCCAT
*
59655820 CAGGCCCAAATCACATTTATATGGCCCAT
1 CAGGCCCAATTCACATTTATATGGCCCAT
*
59655849 CAGGCTCCAA-TCACATTCATAT
1 CAGGC-CCAATTCACATTTATAT
59655871 TCATGCTCGC
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
28 8 0.12
29 57 0.83
30 4 0.06
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.28
Consensus pattern (29 bp):
CAGGCCCAATTCACATTTATATGGCCCAT
Found at i:59660657 original size:25 final size:25
Alignment explanation
Indices: 59660628--59660675 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
59660618 TTATAATATG
* * *
59660628 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
59660653 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
59660676 GTTTAAATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:59660742 original size:20 final size:20
Alignment explanation
Indices: 59660719--59660776 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
59660709 TAAACATGGT
59660719 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
59660739 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
*
59660759 ATGTATCATATGCACATG
1 ATGTATGATATGCACATG
59660777 GTGTATTCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:59660957 original size:24 final size:23
Alignment explanation
Indices: 59660827--59660945 Score: 195
Period size: 23 Copynumber: 5.1 Consensus size: 23
59660817 AGGAAGTGCA
59660827 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
59660850 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
59660873 GAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
59660896 AAAGGGCTTATGCCCCAGCTATT
1 AAAGGGCTTATGCCCCAGTTATT
59660919 AAAAGGGCTT-TGGCCCCAGTTATT
1 -AAAGGGCTTAT-GCCCCAGTTATT
59660943 AAA
1 AAA
59660946 AGAGGCTAGG
Statistics
Matches: 90, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
23 70 0.78
24 20 0.22
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:59661195 original size:31 final size:31
Alignment explanation
Indices: 59661160--59661223 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
59661150 CGTTTACAGT
59661160 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
59661191 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
59661222 AA
1 AA
59661224 TATGAAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:59663663 original size:2 final size:2
Alignment explanation
Indices: 59663656--59663685 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
59663646 ACGTATGACT
59663656 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
59663686 AAAGAAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:59668751 original size:29 final size:29
Alignment explanation
Indices: 59668715--59668819 Score: 138
Period size: 29 Copynumber: 3.6 Consensus size: 29
59668705 AATAAACGAT
*** *
59668715 CTCGCACACTTAGTGCCATGCGATTTAAC
1 CTCGCACACTTAGTGCCATATAATTTAAG
*
59668744 CTCGCACACATAGTGCCATATAATTTAAG
1 CTCGCACACTTAGTGCCATATAATTTAAG
* *
59668773 TTTGCACACTTAGTGCCATATAATTTAAG
1 CTCGCACACTTAGTGCCATATAATTTAAG
*
59668802 TTCGCACACTTAGTGCCA
1 CTCGCACACTTAGTGCCA
59668820 ATCTTGTCAC
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 67 1.00
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (29 bp):
CTCGCACACTTAGTGCCATATAATTTAAG
Found at i:59675124 original size:9 final size:9
Alignment explanation
Indices: 59675107--59675138 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
59675097 AAGGGCTGTA
59675107 CAACCCGTG
1 CAACCCGTG
*
59675116 CAACTCGTG
1 CAACCCGTG
59675125 CAACCCGTG
1 CAACCCGTG
59675134 CAACC
1 CAACC
59675139 AGCGCGAGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.25, C:0.44, G:0.19, T:0.12
Consensus pattern (9 bp):
CAACCCGTG
Found at i:59678995 original size:26 final size:26
Alignment explanation
Indices: 59678966--59679073 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
59678956 TGGCACAAAT
59678966 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
59678992 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
59679018 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
59679044 TGATAATAGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
59679070 TGAT
1 TGAT
59679074 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:59684032 original size:39 final size:41
Alignment explanation
Indices: 59683854--59684038 Score: 230
Period size: 41 Copynumber: 4.6 Consensus size: 41
59683844 TAAAAACAGG
* * * * *
59683854 GGGGCACACATGTACAATTCATGGGCACTGAAGTACAAACA
1 GGGGCACATATGTGCAATTCAGGGGTACCGAAGTACAAACA
* * **
59683895 GGGGCACGTATATGCAATTCAGGGGTACAAAAGTACAAACA
1 GGGGCACATATGTGCAATTCAGGGGTACCGAAGTACAAACA
* * **
59683936 GGAGAACATATGTGCAATTTTGGGGTACCGAAGTACAAACA
1 GGGGCACATATGTGCAATTCAGGGGTACCGAAGTACAAACA
59683977 GGGGCACATATGTGCAATTCAGGGGTACCGAAGTACAAA-A
1 GGGGCACATATGTGCAATTCAGGGGTACCGAAGTACAAACA
*
59684017 -GGGCACGTATGTGCAATTCAGG
1 GGGGCACATATGTGCAATTCAGG
59684039 AAATAATTAA
Statistics
Matches: 123, Mismatches: 21, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
39 21 0.17
40 1 0.01
41 101 0.82
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (41 bp):
GGGGCACATATGTGCAATTCAGGGGTACCGAAGTACAAACA
Found at i:59694806 original size:27 final size:27
Alignment explanation
Indices: 59694772--59694917 Score: 157
Period size: 27 Copynumber: 5.4 Consensus size: 27
59694762 TGGATAAGTT
* **
59694772 GTAGAATTACCGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCTTGTGGG
* * * *
59694799 GTAGAATTATCAAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCTTGTGGG
* * *
59694826 ATAGAATTACCAAAATACCCTTGTTGG
1 GTAGAATTACCGAAATACCCTTGTGGG
* * *
59694853 GTAGAAATATCGAAATGCCCTTGTGGG
1 GTAGAATTACCGAAATACCCTTGTGGG
*
59694880 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCTTGTGGG
*
59694907 GTAAAATTACC
1 GTAGAATTACC
59694918 ATTTTGCCCC
Statistics
Matches: 101, Mismatches: 18, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 101 1.00
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.26
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCTTGTGGG
Found at i:59695609 original size:27 final size:26
Alignment explanation
Indices: 59695569--59695622 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
59695559 CTCACTGCAA
* *
59695569 TCTGGTGGCCTCGTGACATATATCTGG
1 TCTGGTGACCTCGTCACA-ATATCTGG
*
59695596 TCTGGTGACTTCGTCACAATATCTGG
1 TCTGGTGACCTCGTCACAATATCTGG
59695622 T
1 T
59695623 AGCCTCGCTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.17, C:0.22, G:0.26, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGTCACAATATCTGG
Found at i:59704134 original size:28 final size:29
Alignment explanation
Indices: 59704073--59704140 Score: 93
Period size: 28 Copynumber: 2.4 Consensus size: 29
59704063 TATATATTTG
*
59704073 GTAATATAAATGAAAAAAATACAAACTTT
1 GTAATATAAATGAAAAAAATACAAACATT
* * *
59704102 ATAATATAAATG-CAAAATTACAAACATT
1 GTAATATAAATGAAAAAAATACAAACATT
59704130 GTAATATAAAT
1 GTAATATAAAT
59704141 TAGATGCAGT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 23 0.68
29 11 0.32
ACGTcount: A:0.57, C:0.07, G:0.06, T:0.29
Consensus pattern (29 bp):
GTAATATAAATGAAAAAAATACAAACATT
Found at i:59709703 original size:13 final size:13
Alignment explanation
Indices: 59709687--59709711 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59709677 AAGAAAAAAC
59709687 TAAAAATTCCAAA
1 TAAAAATTCCAAA
59709700 TAAAAATTCCAA
1 TAAAAATTCCAA
59709712 TTGATAAGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (13 bp):
TAAAAATTCCAAA
Found at i:59711221 original size:17 final size:17
Alignment explanation
Indices: 59711199--59711233 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
59711189 CAAAGCCCGC
59711199 CACGAGCATATCTTGAA
1 CACGAGCATATCTTGAA
59711216 CACGAGCATATCTTGAA
1 CACGAGCATATCTTGAA
59711233 C
1 C
59711234 TATGCAAGGA
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:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (17 bp):
CACGAGCATATCTTGAA
Found at i:59713410 original size:14 final size:14
Alignment explanation
Indices: 59713391--59713423 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
59713381 TAAAATAAAT
59713391 ATTTT-ATTAAATTA
1 ATTTTAATT-AATTA
59713405 ATTTTAATTAATTA
1 ATTTTAATTAATTA
59713419 ATTTT
1 ATTTT
59713424 CCAATTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 15 0.83
15 3 0.17
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
ATTTTAATTAATTA
Found at i:59716123 original size:28 final size:27
Alignment explanation
Indices: 59716047--59716135 Score: 85
Period size: 28 Copynumber: 3.3 Consensus size: 27
59716037 GATATGATAT
* * *
59716047 TGTGCTATGTGAAATAAGACCATGGCA
1 TGTGCTAAGTGAAATAAGTCCATGGAA
* *
59716074 --T-CTAGGTGAAATAAGTCAATGGTAA
1 TGTGCTAAGTGAAATAAGTCCATGG-AA
*
59716099 TGTGCTAAGTGAAATAAGTCCATGGCAT
1 TGTGCTAAGTGAAATAAGTCCATGG-AA
59716127 TGTGCTAAG
1 TGTGCTAAG
59716136 CGAGAATTTT
Statistics
Matches: 50, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
24 18 0.36
25 2 0.04
27 1 0.02
28 29 0.58
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.28
Consensus pattern (27 bp):
TGTGCTAAGTGAAATAAGTCCATGGAA
Found at i:59716238 original size:51 final size:51
Alignment explanation
Indices: 59716162--59716361 Score: 321
Period size: 51 Copynumber: 3.9 Consensus size: 51
59716152 TGAACCTAAG
*
59716162 GAATAAAATAGCTTTAGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* * *
59716213 GAATATAATAGCTTTGGACACAAGTGTGGCACTATGTGAAGGCCATTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* *
59716264 GAATAAAATAGCTTTGGACACAAATGTAGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
*
59716315 GAATAAAATAGCTTTGG-CTACAAGGGTGGTACTATGTGAAGGCCACT
1 GAATAAAATAGCTTTGGAC-ACAAGTGTGGTACTATGTGAAGGCCACT
59716362 GTGTATCCGT
Statistics
Matches: 136, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
50 1 0.01
51 135 0.99
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
Found at i:59720645 original size:42 final size:42
Alignment explanation
Indices: 59720542--59720659 Score: 116
Period size: 43 Copynumber: 2.8 Consensus size: 42
59720532 CGGAAAGCTC
* * *
59720542 GTACGATGCCAACGTCCTAGATGTGGTCTTACAAGTAATCAA
1 GTACGATGCCAACGTCCCAGAAGTGGTCTTACAAGAAATCAA
* * *
59720584 ATATCGATGCC-ACTATCCCAGACAG-GGTTTTACAAGAAATCAA
1 GTA-CGATGCCAAC-GTCCCAGA-AGTGGTCTTACAAGAAATCAA
*
59720627 GTACGATGCCAACGTCCCAGGCA-TGGTCTTACA
1 GTACGATGCCAACGTCCCA-GAAGTGGTCTTACA
59720660 TGATAACACA
Statistics
Matches: 60, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
42 25 0.42
43 34 0.57
44 1 0.02
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (42 bp):
GTACGATGCCAACGTCCCAGAAGTGGTCTTACAAGAAATCAA
Found at i:59725734 original size:34 final size:34
Alignment explanation
Indices: 59725680--59725745 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
59725670 TGCATACGGT
*
59725680 ACTGATACTGTTACTAAAATGGGCTCAGGCCCAG
1 ACTGATACTGTTACTAAAATGGGCTAAGGCCCAG
* * *
59725714 ACTGCTACTGTTTCTGAAATGGGCTAAGGCCC
1 ACTGATACTGTTACTAAAATGGGCTAAGGCCC
59725746 TAACTAGGAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (34 bp):
ACTGATACTGTTACTAAAATGGGCTAAGGCCCAG
Found at i:59727353 original size:43 final size:43
Alignment explanation
Indices: 59727228--59727354 Score: 125
Period size: 43 Copynumber: 3.0 Consensus size: 43
59727218 CAGAAAGCTC
* * * * *
59727228 GTACAATGCCAATGTCCAAGACGTGGTCTTACATGT-AATCAA
1 GTACGATGCCAACGTCCAAAACATGGTCTTACACGTAAATCAA
* * * *
59727270 ATATCGATGCC-ACTGTCCCAAATAGGGTCTTACACG-AAATCAA
1 GTA-CGATGCCAAC-GTCCAAAACATGGTCTTACACGTAAATCAA
*
59727313 GTACGATGCCAACGTCCAAAACATGGCCTTACACGTAAATCA
1 GTACGATGCCAACGTCCAAAACATGGTCTTACACGTAAATCA
59727355 TAAGTCAATG
Statistics
Matches: 66, Mismatches: 14, Indels: 9
0.74 0.16 0.10
Matches are distributed among these distances:
42 28 0.42
43 38 0.58
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.23
Consensus pattern (43 bp):
GTACGATGCCAACGTCCAAAACATGGTCTTACACGTAAATCAA
Found at i:59733958 original size:40 final size:40
Alignment explanation
Indices: 59733898--59734068 Score: 267
Period size: 40 Copynumber: 4.3 Consensus size: 40
59733888 CCTTTGGGGT
* *
59733898 TTAG-CCGGATATAGCT-ACTCGCTCAAATGCCTTCGGGAC
1 TTAGCCCGGTTATAG-TAACTCGCACAAATGCCTTCGGGAC
*
59733937 TTAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGAC
1 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
*
59733977 TTAGCCCGGTTATAATAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
*
59734017 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGG-C
1 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
59734056 TTAGCCCGGTTAT
1 TTAGCCCGGTTAT
59734069 CAATCCGAAT
Statistics
Matches: 122, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
39 18 0.15
40 104 0.85
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
Found at i:59734667 original size:2 final size:2
Alignment explanation
Indices: 59734660--59734693 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
59734650 TTAAAATACC
59734660 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
59734694 CATAAGTGCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:59737639 original size:33 final size:33
Alignment explanation
Indices: 59737576--59737639 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
59737566 ACACAGTATT
* *
59737576 AGTACAGTCTTGGCCAAAGCCCTATTCAGTAAC
1 AGTACAGTCTGGGCCAAAGCCCTATACAGTAAC
** *
59737609 AGTACAGTCTGGGCCTTAGCCTTATACAGTA
1 AGTACAGTCTGGGCCAAAGCCCTATACAGTA
59737640 GCATTGTGGG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (33 bp):
AGTACAGTCTGGGCCAAAGCCCTATACAGTAAC
Found at i:59740918 original size:21 final size:21
Alignment explanation
Indices: 59740894--59740937 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
59740884 AATCTACATA
59740894 TGATTTTTGACGATCGGAAGC
1 TGATTTTTGACGATCGGAAGC
59740915 TGATTTTTGACGATCGGAAGC
1 TGATTTTTGACGATCGGAAGC
59740936 TG
1 TG
59740938 CTTTCAGACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.14, G:0.30, T:0.34
Consensus pattern (21 bp):
TGATTTTTGACGATCGGAAGC
Found at i:59743723 original size:18 final size:18
Alignment explanation
Indices: 59743700--59743735 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
59743690 ATTATTGGGT
59743700 TAGGCTGTGTAGTTCGCA
1 TAGGCTGTGTAGTTCGCA
59743718 TAGGCTGTGTAGTTCGCA
1 TAGGCTGTGTAGTTCGCA
59743736 CGACCAAGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.17, G:0.33, T:0.33
Consensus pattern (18 bp):
TAGGCTGTGTAGTTCGCA
Found at i:59744146 original size:34 final size:34
Alignment explanation
Indices: 59744093--59744192 Score: 155
Period size: 34 Copynumber: 2.9 Consensus size: 34
59744083 TGCATACGGT
* *
59744093 ACTGATACTATTACTGAAATGGGCTCAGGCCTAG
1 ACTGATACTGTTACTGAAATGGGCTCAGGCCCAG
*
59744127 ACTGTTACTGTTACTGAAATGGGCTCAGGCCCAG
1 ACTGATACTGTTACTGAAATGGGCTCAGGCCCAG
* *
59744161 ACTGCTACTGTTACTGAAATGGGCTAAGGCCC
1 ACTGATACTGTTACTGAAATGGGCTCAGGCCC
59744193 TAACTGGGAC
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 61 1.00
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (34 bp):
ACTGATACTGTTACTGAAATGGGCTCAGGCCCAG
Found at i:59746390 original size:29 final size:29
Alignment explanation
Indices: 59746357--59746487 Score: 154
Period size: 29 Copynumber: 4.5 Consensus size: 29
59746347 TGACGAGATC
*
59746357 GGCACTAAGTGTGCGTGCTGGGAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
*
59746386 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
* *
59746415 GGCACTAAGTGTGCATGCTGGAAAAATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
* * ** * *
59746444 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
**
59746473 GGCACTGGGTGTGCG
1 GGCACTAAGTGTGCG
59746488 AGCTCGGAGG
Statistics
Matches: 89, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 89 1.00
ACGTcount: A:0.29, C:0.15, G:0.32, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAATATAT
Found at i:59755668 original size:47 final size:49
Alignment explanation
Indices: 59755593--59755724 Score: 163
Period size: 46 Copynumber: 2.8 Consensus size: 49
59755583 TGTAACCCGC
59755593 CCATAAGCGAACTC-GACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTCACAT
* *
59755642 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACAT
*
59755685 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
59755725 TCAACCATCC
Statistics
Matches: 71, Mismatches: 4, Indels: 16
0.78 0.04 0.18
Matches are distributed among these distances:
42 2 0.03
43 4 0.06
44 2 0.03
45 2 0.03
46 36 0.51
47 24 0.34
48 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (49 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACAT
Found at i:59755740 original size:46 final size:44
Alignment explanation
Indices: 59755601--59755740 Score: 126
Period size: 46 Copynumber: 3.0 Consensus size: 44
59755591 GCCCATAAGC
*
59755601 GAACTC-GACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATCTCA-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT-AGT
* * *
59755647 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-AAGT
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCTAGT
59755693 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CTAGT
59755739 GA
1 GA
59755741 CATGTCACTT
Statistics
Matches: 78, Mismatches: 8, Indels: 16
0.76 0.08 0.16
Matches are distributed among these distances:
44 9 0.12
45 1 0.01
46 39 0.50
47 24 0.31
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (44 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCTAGT
Found at i:59760408 original size:29 final size:27
Alignment explanation
Indices: 59760361--59760472 Score: 91
Period size: 29 Copynumber: 4.0 Consensus size: 27
59760351 TGAGTATAAT
* *
59760361 ATGATTTGGGCCTAATGGGCCATATGA
1 ATGAATTGGGCCTAGTGGGCCATATGA
*
59760388 AGGTGAATTGGGCCTAGTGGGCCATAAGAA
1 A--TGAATTGGGCCTAGTGGGCCATATG-A
* * *
59760418 TATGAACTAGGCC-AGATGGGCCATTTGA
1 -ATGAATTGGGCCTAG-TGGGCCATATGA
* *
59760446 ATAAGATTGGGCCTAGTGGGCTATATG
1 ATGA-ATTGGGCCTAGTGGGCCATATG
59760473 CATGTATGTA
Statistics
Matches: 66, Mismatches: 12, Indels: 13
0.73 0.13 0.14
Matches are distributed among these distances:
27 4 0.06
28 18 0.27
29 42 0.64
30 1 0.02
31 1 0.02
ACGTcount: A:0.28, C:0.14, G:0.32, T:0.26
Consensus pattern (27 bp):
ATGAATTGGGCCTAGTGGGCCATATGA
Found at i:59763953 original size:30 final size:29
Alignment explanation
Indices: 59763859--59763960 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
59763849 TATAGTGAAT
* * *
59763859 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
59763888 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
59763916 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
59763946 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
59763961 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:59766429 original size:16 final size:16
Alignment explanation
Indices: 59766408--59766440 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
59766398 TTGTAACGCC
59766408 CCAAAAATCCCGAAAT
1 CCAAAAATCCCGAAAT
*
59766424 CCAAAAATCCTGAAAT
1 CCAAAAATCCCGAAAT
59766440 C
1 C
59766441 TTGAATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.48, C:0.30, G:0.06, T:0.15
Consensus pattern (16 bp):
CCAAAAATCCCGAAAT
Found at i:59767684 original size:24 final size:24
Alignment explanation
Indices: 59767649--59767694 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
59767639 TCGGCGAAAT
*
59767649 CTAAAATGCCGAAAAGCCAAAAAG
1 CTAAAATACCGAAAAGCCAAAAAG
*
59767673 CTAAAATACCGAAAAGTCAAAA
1 CTAAAATACCGAAAAGCCAAAA
59767695 GTTGGGCTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.57, C:0.20, G:0.13, T:0.11
Consensus pattern (24 bp):
CTAAAATACCGAAAAGCCAAAAAG
Found at i:59767950 original size:29 final size:28
Alignment explanation
Indices: 59767912--59768023 Score: 109
Period size: 29 Copynumber: 3.9 Consensus size: 28
59767902 TGAATATAAT
*
59767912 ATGATTTGGGCCTAATGGGCCATATGAA
1 ATGAATTGGGCCTAATGGGCCATATGAA
* * *
59767940 AGTGAATTGGGCCTAGTGAGCCATACGAA
1 A-TGAATTGGGCCTAATGGGCCATATGAA
* *
59767969 TATGAATTGGGCCAAATGGGCCATTTG-A
1 -ATGAATTGGGCCTAATGGGCCATATGAA
* * *
59767997 ATAAGATTGGGCCTAGTGGGCTATATG
1 ATGA-ATTGGGCCTAATGGGCCATATG
59768024 CATGTATGGA
Statistics
Matches: 67, Mismatches: 14, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
27 3 0.04
28 20 0.30
29 43 0.64
30 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.30, T:0.27
Consensus pattern (28 bp):
ATGAATTGGGCCTAATGGGCCATATGAA
Found at i:59775605 original size:14 final size:16
Alignment explanation
Indices: 59775576--59775607 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
59775566 GGATTATGTA
59775576 GAAAAAATAAAGAAAT
1 GAAAAAATAAAGAAAT
59775592 GAAAAAA-AAA-AAAT
1 GAAAAAATAAAGAAAT
59775606 GA
1 GA
59775608 GCATGGATGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 3 0.19
16 7 0.44
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.09
Consensus pattern (16 bp):
GAAAAAATAAAGAAAT
Found at i:59776111 original size:29 final size:29
Alignment explanation
Indices: 59776078--59776151 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
59776068 GTGACGAGAT
59776078 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
59776107 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
59776136 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
59776152 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:59776167 original size:29 final size:28
Alignment explanation
Indices: 59776135--59776209 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
59776125 CTGGAAATAT
* *
59776135 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCT-AAAGCGC
** * *
59776164 ATGGCACTGTGTGTGCGGGCTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTAAAGCGC
59776192 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
59776210 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.23, C:0.20, G:0.36, T:0.21
Consensus pattern (28 bp):
ATGGCACTAAGTGTGCGAGCTAAAGCGC
Found at i:59776178 original size:58 final size:57
Alignment explanation
Indices: 59776078--59776209 Score: 131
Period size: 58 Copynumber: 2.3 Consensus size: 57
59776068 GTGACGAGAT
* * * * * *
59776078 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT--AAATCACA
* * ** * *
59776136 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTAAATCACA
59776193 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
59776210 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
56 4 0.07
57 18 0.30
58 39 0.64
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.24
Consensus pattern (57 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTAAATCACA
Found at i:59783315 original size:29 final size:29
Alignment explanation
Indices: 59783282--59783355 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
59783272 GTGACGAGAT
59783282 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
59783311 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
59783340 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
59783356 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:59783371 original size:29 final size:29
Alignment explanation
Indices: 59783339--59783414 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
59783329 CTGGAAATAT
* *
59783339 ATGGCACTAAGTGTGCGAG-CTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCCT-AAAGCGC
** * *
59783368 ATGGCACTGTGTGTGCGGGCCTAAATCGC
1 ATGGCACTAAGTGTGCGAGCCTAAAGCGC
59783397 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
59783415 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
29 35 0.95
30 2 0.05
ACGTcount: A:0.22, C:0.21, G:0.36, T:0.21
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCCTAAAGCGC
Found at i:59789486 original size:40 final size:40
Alignment explanation
Indices: 59789413--59789625 Score: 245
Period size: 40 Copynumber: 5.3 Consensus size: 40
59789403 GGGCTAAGTC
* * * *
59789413 CCGAAGGC-TTTGTGCTAAGTGACTATATTCGGACTAAGAT
1 CCGAAGGCATTTGTGC-GAGTTACTAAATCCGGACTAAGAT
*
59789453 CCGAAGGCATTTGTACGAGTTACTAAATCCGGACTAAGAT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGAT
*
59789493 CCGAAGGCATTTGTGCGAGTTACTTAATCCGGACTAAGAT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGAT
* * **
59789533 CCGAAGGCATTGGTGCGGGTTACTAAATCCGGGTTAAG-T
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGAT
* * *
59789572 CCCGAAGGCATTTGTGCGAGCTACTATAA-CCGGGCTATG-T
1 -CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGACTAAGAT
59789612 CCCGAAGGCATTTG
1 -CCGAAGGCATTTG
59789626 AATGAGTAGC
Statistics
Matches: 153, Mismatches: 17, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
39 1 0.01
40 144 0.94
41 8 0.05
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGAT
Found at i:59789639 original size:40 final size:40
Alignment explanation
Indices: 59789401--59789644 Score: 128
Period size: 40 Copynumber: 6.1 Consensus size: 40
59789391 CGAATGATGC
** * *
59789401 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAAC-GAGCT-ACTATAA
* * * *
59789441 TCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTA-AA
1 CCGGGCTAAG-TCCCGAAGGCATTTGAACGAGCTACTATAA
* ** *
59789480 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACT-TAA
1 -CCGGGCTAAG-TCCCGAAGGCATTTGAACGAGCTACTATAA
* * ** * *
59789520 TCCGGACTAAGAT-CCGAAGGCATTGGTGCGGGTTACTA-AA
1 -CCGGGCTAAG-TCCCGAAGGCATTTGAACGAGCTACTATAA
* **
59789560 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGAACGAGCTACTATAA
* * *
59789601 CCGGGCTATGTCCCGAAGGCATTTGAATGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAACGAGCTA-CTATAA
59789641 CCGG
1 CCGG
59789645 TTAAACTCCG
Statistics
Matches: 175, Mismatches: 20, Indels: 18
0.82 0.09 0.08
Matches are distributed among these distances:
39 4 0.02
40 161 0.92
41 10 0.06
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAACGAGCTACTATAA
Found at i:59807082 original size:2 final size:2
Alignment explanation
Indices: 59807075--59807100 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
59807065 TCGATCAGAG
59807075 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
59807101 GTAGTGTACG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:59811591 original size:40 final size:40
Alignment explanation
Indices: 59811535--59811702 Score: 184
Period size: 40 Copynumber: 4.2 Consensus size: 40
59811525 CAATTGAATG
* *
59811535 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTG-CTT
59811576 -TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAG-TGCTT
* * *
59811615 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGT-CGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGC-TT
** *
59811655 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTGCTT
59811695 ATATCCGG
1 ATATCCGG
59811703 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 9, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
39 8 0.07
40 98 0.89
41 4 0.04
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGCTT
Found at i:59811668 original size:80 final size:79
Alignment explanation
Indices: 59811535--59811702 Score: 239
Period size: 80 Copynumber: 2.1 Consensus size: 79
59811525 CAATTGAATG
* *
59811535 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGA-TTTATCCGGGCTAAGACCCGAAGGCA
*
59811600 TTCGTGCAAGTTGTT
65 TTCGTGCAAGTGGTT
* *
59811615 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCG-TTATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT-GATT-TATCCGGGCTAAGACCCGAAGGC
**
59811679 ATTCGTGCGTGTGGTT
64 ATTCGTGCAAGTGGTT
59811695 ATATCCGG
1 ATATCCGG
59811703 TTGTATTCCG
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
79 2 0.03
80 76 0.96
81 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATTTATCCGGGCTAAGACCCGAAGGCAT
TCGTGCAAGTGGTT
Found at i:59821252 original size:17 final size:17
Alignment explanation
Indices: 59821211--59821252 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
59821201 TTTGAGTCCA
59821211 TTTATTTTCACTTTGTT
1 TTTATTTTCACTTTGTT
**
59821228 TTGCTTTTC-CTTTTGTT
1 TTTATTTTCAC-TTTGTT
59821245 TTTATTTT
1 TTTATTTT
59821253 AAAAGTTTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
16 1 0.05
17 19 0.95
ACGTcount: A:0.07, C:0.12, G:0.07, T:0.74
Consensus pattern (17 bp):
TTTATTTTCACTTTGTT
Found at i:59822824 original size:30 final size:30
Alignment explanation
Indices: 59822788--59822848 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
59822778 TCGAAGACAT
59822788 GGCATTGGTAGGATATTGATAGACAGGAAC
1 GGCATTGGTAGGATATTGATAGACAGGAAC
59822818 GGCATTGGTAGGATATTGATAGACAGGAAC
1 GGCATTGGTAGGATATTGATAGACAGGAAC
59822848 G
1 G
59822849 ACCCTAGTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.33, C:0.10, G:0.34, T:0.23
Consensus pattern (30 bp):
GGCATTGGTAGGATATTGATAGACAGGAAC
Found at i:59825188 original size:25 final size:25
Alignment explanation
Indices: 59825159--59825206 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
59825149 TTATAATATG
* * *
59825159 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
59825184 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
59825207 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:59825275 original size:20 final size:20
Alignment explanation
Indices: 59825250--59825308 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
59825240 TAAATATGGT
59825250 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
59825270 ATGTATGATACGCACATGAT
1 ATGTATGATATGCACATGAA
59825290 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
59825309 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:59825428 original size:47 final size:48
Alignment explanation
Indices: 59825359--59825477 Score: 172
Period size: 47 Copynumber: 2.5 Consensus size: 48
59825349 GAGGAAGTGA
59825359 AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTTAT-GCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTT-TGGCCCCAGTTATT
*
59825406 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTGGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTTTGGCCCCAGTTATT
*
59825454 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
59825478 ATGATAAAGC
Statistics
Matches: 66, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
46 1 0.02
47 43 0.65
48 11 0.17
49 11 0.17
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTTTGGCCCCAGTTATT
Found at i:59825453 original size:24 final size:24
Alignment explanation
Indices: 59825359--59825477 Score: 154
Period size: 24 Copynumber: 5.0 Consensus size: 24
59825349 GAGGAAGTGA
*
59825359 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
*
59825383 GAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
59825406 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
59825430 GAAAGGGCTT-TGGCCCCAGTTATT
1 AAAAGGGCTTAT-GCCCCAGTTATT
*
59825454 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
59825478 ATGATAAAGC
Statistics
Matches: 84, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
23 22 0.26
24 51 0.61
25 11 0.13
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:59825704 original size:31 final size:31
Alignment explanation
Indices: 59825669--59825732 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
59825659 CGTTTACAGT
59825669 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
59825700 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
59825731 AA
1 AA
59825733 CATGAAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:59825775 original size:37 final size:38
Alignment explanation
Indices: 59825686--59825792 Score: 180
Period size: 38 Copynumber: 2.8 Consensus size: 38
59825676 TCGGCCCAGT
59825686 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
1 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
*
59825724 AATATGAAACATGAAAAGGCTTCGGCCCAGTATTATG-
1 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
*
59825761 AATATGAAATATGAAAAGGGCTACGGCCCAGT
1 AATATGAAATATGAAAA-GGCTTCGGCCCAGT
59825793 GCATGATTGA
Statistics
Matches: 65, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
37 16 0.25
38 49 0.75
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.23
Consensus pattern (38 bp):
AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
Found at i:59833399 original size:25 final size:25
Alignment explanation
Indices: 59833370--59833417 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
59833360 TTATAATATG
* * *
59833370 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
59833395 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
59833418 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:59833486 original size:20 final size:20
Alignment explanation
Indices: 59833461--59833519 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
59833451 TAAATATGGT
59833461 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
59833481 ATGTATGATACGCACATGAT
1 ATGTATGATATGCACATGAA
59833501 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
59833520 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:59833639 original size:47 final size:48
Alignment explanation
Indices: 59833570--59833688 Score: 172
Period size: 47 Copynumber: 2.5 Consensus size: 48
59833560 GAGGAAGTGA
59833570 AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTTAT-GCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTT-TGGCCCCAGTTATT
*
59833617 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTGGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTTTGGCCCCAGTTATT
*
59833665 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
59833689 ATGATAAAGC
Statistics
Matches: 66, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
46 1 0.02
47 43 0.65
48 11 0.17
49 11 0.17
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTTTGGCCCCAGTTATT
Found at i:59833664 original size:24 final size:24
Alignment explanation
Indices: 59833570--59833688 Score: 154
Period size: 24 Copynumber: 5.0 Consensus size: 24
59833560 GAGGAAGTGA
*
59833570 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
*
59833594 GAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
59833617 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
59833641 GAAAGGGCTT-TGGCCCCAGTTATT
1 AAAAGGGCTTAT-GCCCCAGTTATT
*
59833665 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
59833689 ATGATAAAGC
Statistics
Matches: 84, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
23 22 0.26
24 51 0.61
25 11 0.13
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:59833914 original size:31 final size:31
Alignment explanation
Indices: 59833879--59833942 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
59833869 CGTTTACAGT
59833879 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
59833910 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
59833941 AA
1 AA
59833943 CATGAAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:59833985 original size:37 final size:38
Alignment explanation
Indices: 59833896--59834002 Score: 180
Period size: 38 Copynumber: 2.8 Consensus size: 38
59833886 TCGGCCCAGT
59833896 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
1 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
*
59833934 AATATGAAACATGAAAAGGCTTCGGCCCAGTATTATG-
1 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
*
59833971 AATATGAAATATGAAAAGGGCTACGGCCCAGT
1 AATATGAAATATGAAAA-GGCTTCGGCCCAGT
59834003 GCATGATTGA
Statistics
Matches: 65, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
37 16 0.25
38 49 0.75
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.23
Consensus pattern (38 bp):
AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
Found at i:59844145 original size:20 final size:20
Alignment explanation
Indices: 59844120--59844158 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
59844110 AGAACTTTGG
59844120 AAAGTTCTAGGAAAACATAC
1 AAAGTTCTAGGAAAACATAC
*
59844140 AAAGTTCTGGGAAAACATA
1 AAAGTTCTAGGAAAACATA
59844159 GAAAATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.21
Consensus pattern (20 bp):
AAAGTTCTAGGAAAACATAC
Found at i:59844632 original size:2 final size:2
Alignment explanation
Indices: 59844625--59844654 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
59844615 ACAACAAACT
59844625 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
59844655 ACTAAGCCAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:59845530 original size:17 final size:15
Alignment explanation
Indices: 59845490--59845531 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 15
59845480 AATAGAATCA
59845490 ATAATAATTTTAACC
1 ATAATAATTTTAACC
59845505 AT-ATAATTTATAACTC
1 ATAATAATTT-TAAC-C
*
59845521 ATAATTATTTT
1 ATAATAATTTT
59845532 TTTAAAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
14 7 0.30
15 6 0.26
16 4 0.17
17 6 0.26
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.48
Consensus pattern (15 bp):
ATAATAATTTTAACC
Found at i:59846225 original size:56 final size:56
Alignment explanation
Indices: 59846106--59846236 Score: 158
Period size: 56 Copynumber: 2.3 Consensus size: 56
59846096 CATAACATAG
* *
59846106 CACGCCTCTCAACAGGGCTACATAAGAGCACTCGAACCTAGCATGCATCACATAAT
1 CACGCCTCTCAACAGGGCTACATAAGAGCACCCGAACCTAGCATGCACCACATAAT
* * ** *
59846162 CACGCCTCTCAACAGGGCTACAT-A-AGCTCCCGGACCTAGTGTGTACCACATAATT
1 CACGCCTCTCAACAGGGCTACATAAGAGCACCCGAACCTAGCATGCACCACATAA-T
*
59846217 ACATGCCTCTCAACAGGGCT
1 -CACGCCTCTCAACAGGGCT
59846237 GCACAACCTC
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
54 22 0.34
55 2 0.03
56 41 0.63
ACGTcount: A:0.30, C:0.33, G:0.18, T:0.20
Consensus pattern (56 bp):
CACGCCTCTCAACAGGGCTACATAAGAGCACCCGAACCTAGCATGCACCACATAAT
Found at i:59850201 original size:24 final size:24
Alignment explanation
Indices: 59850169--59850216 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
59850159 TTTGAGGAAA
59850169 AATATGAAAATGTAGGAATGAATT
1 AATATGAAAATGTAGGAATGAATT
59850193 AATATGAAAATGTAGGAATGAATT
1 AATATGAAAATGTAGGAATGAATT
59850217 CTATCATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.21, T:0.29
Consensus pattern (24 bp):
AATATGAAAATGTAGGAATGAATT
Found at i:59854989 original size:18 final size:19
Alignment explanation
Indices: 59854966--59855007 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 19
59854956 GAGAAGAAGA
59854966 GGGAA-TTTGGGAGTGAGC
1 GGGAATTTTGGGAGTGAGC
59854984 GGGAATTTTTTGGGAGTGAGC
1 GGGAA--TTTTGGGAGTGAGC
59855005 GGG
1 GGG
59855008 TAAGCAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 5 0.24
21 16 0.76
ACGTcount: A:0.19, C:0.05, G:0.50, T:0.26
Consensus pattern (19 bp):
GGGAATTTTGGGAGTGAGC
Found at i:59855312 original size:15 final size:15
Alignment explanation
Indices: 59855296--59855344 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
59855286 GTTTTTTTAT
*
59855296 TTTTTTATTTTT-AA
1 TTTTTAATTTTTAAA
*
59855310 TTTTTAAATTTTAAA
1 TTTTTAATTTTTAAA
* *
59855325 TTTTAAATTTTAAAA
1 TTTTTAATTTTTAAA
59855340 TTTTT
1 TTTTT
59855345 TTGAAGATTT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
14 10 0.36
15 18 0.64
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTTAATTTTTAAA
Found at i:59855315 original size:7 final size:7
Alignment explanation
Indices: 59855289--59855337 Score: 53
Period size: 7 Copynumber: 7.0 Consensus size: 7
59855279 TATTTAAGTT
*
59855289 TTTTTAT
1 TTTTTAA
*
59855296 TTTTTTA
1 TTTTTAA
59855303 TTTTTAA
1 TTTTTAA
59855310 TTTTTAA
1 TTTTTAA
*
59855317 ATTTTAA
1 TTTTTAA
*
59855324 ATTTTAA
1 TTTTTAA
*
59855331 ATTTTAA
1 TTTTTAA
59855338 AATTTTTTTG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (7 bp):
TTTTTAA
Found at i:59855321 original size:14 final size:14
Alignment explanation
Indices: 59855290--59855337 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
59855280 ATTTAAGTTT
* * *
59855290 TTTTATTTTTTTAT
1 TTTTAATTTTTAAA
59855304 TTTTAATTTTTAAA
1 TTTTAATTTTTAAA
*
59855318 TTTTAAATTTTAAA
1 TTTTAATTTTTAAA
59855332 TTTTAA
1 TTTTAA
59855338 AATTTTTTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTAATTTTTAAA
Found at i:59855321 original size:21 final size:21
Alignment explanation
Indices: 59855297--59855366 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
59855287 TTTTTTTATT
59855297 TTTTTATTTTTAATTTTTAAA
1 TTTTTATTTTTAATTTTTAAA
* * *
59855318 TTTTAAATTTTAAATTTTAAA
1 TTTTTATTTTTAATTTTTAAA
* **
59855339 ATTTT-TTTGAAGATTTTTATAA
1 TTTTTATTTTTA-ATTTTTA-AA
59855361 TTTTTA
1 TTTTTA
59855367 AATTATCGTA
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
20 3 0.08
21 27 0.75
22 6 0.17
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (21 bp):
TTTTTATTTTTAATTTTTAAA
Found at i:59855340 original size:8 final size:7
Alignment explanation
Indices: 59855304--59855343 Score: 62
Period size: 7 Copynumber: 5.6 Consensus size: 7
59855294 ATTTTTTTAT
*
59855304 TTTTAAT
1 TTTTAAA
59855311 TTTTAAA
1 TTTTAAA
59855318 TTTTAAA
1 TTTTAAA
59855325 TTTTAAA
1 TTTTAAA
59855332 TTTTAAAA
1 TTTT-AAA
59855340 TTTT
1 TTTT
59855344 TTTGAAGATT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
7 24 0.77
8 7 0.23
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (7 bp):
TTTTAAA
Found at i:59855370 original size:8 final size:8
Alignment explanation
Indices: 59855274--59855370 Score: 65
Period size: 8 Copynumber: 11.9 Consensus size: 8
59855264 ATATTAAATA
*
59855274 TTAAATAT
1 TTAAATTT
*
59855282 TTAAGTTT
1 TTAAATTT
**
59855290 TTTTATTT
1 TTAAATTT
**
59855298 TTTTATTT
1 TTAAATTT
59855306 TT-AATTT
1 TTAAATTT
59855313 TTAAA-TT
1 TTAAATTT
59855320 TTAAA-TT
1 TTAAATTT
59855327 TTAAATTT
1 TTAAATTT
*
59855335 TAAAATTTTT
1 TTAAA--TTT
59855345 TTGAAGATTT
1 TT-AA-ATTT
59855355 TTATAATTT
1 TTA-AATTT
59855364 TTAAATT
1 TTAAATT
59855371 ATCGTATAAA
Statistics
Matches: 74, Mismatches: 8, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
7 20 0.27
8 33 0.45
9 8 0.11
10 10 0.14
11 2 0.03
12 1 0.01
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (8 bp):
TTAAATTT
Found at i:59856181 original size:18 final size:16
Alignment explanation
Indices: 59856158--59856199 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 16
59856148 TTTCTCTTAA
59856158 ATAATTTAAACTATATT
1 ATAATTTAAA-TATATT
*
59856175 CATAATTTTAATATATT
1 -ATAATTTAAATATATT
59856192 A-AATTTAA
1 ATAATTTAA
59856200 TATTATCTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 6 0.27
16 1 0.05
17 6 0.27
18 9 0.41
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (16 bp):
ATAATTTAAATATATT
Found at i:59856329 original size:7 final size:7
Alignment explanation
Indices: 59856261--59856330 Score: 61
Period size: 7 Copynumber: 9.9 Consensus size: 7
59856251 ACTAATTAAT
59856261 CTAAACC
1 CTAAACC
59856268 CTAAAACC
1 CT-AAACC
*
59856276 CTAACCC
1 CTAAACC
59856283 CT-AACC
1 CTAAACC
*
59856289 CTTAACC
1 CTAAACC
59856296 TCTAAACC
1 -CTAAACC
*
59856304 CTAAGCC
1 CTAAACC
* *
59856311 ATAAAAC
1 CTAAACC
*
59856318 ATAAACC
1 CTAAACC
59856325 CTAAAC
1 CTAAAC
59856331 TTCTACCCCT
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
6 5 0.10
7 33 0.65
8 13 0.25
ACGTcount: A:0.43, C:0.39, G:0.01, T:0.17
Consensus pattern (7 bp):
CTAAACC
Found at i:59856640 original size:15 final size:15
Alignment explanation
Indices: 59856617--59856667 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
59856607 CTACCCATGG
*
59856617 CCATTAAACCTTAAA
1 CCATAAAACCTTAAA
*
59856632 CCATAAAACCCTAAA
1 CCATAAAACCTTAAA
*
59856647 CCAT-AGACCTTAAA
1 CCATAAAACCTTAAA
*
59856661 CCTTAAA
1 CCATAAA
59856668 TATTAAACCC
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
14 11 0.38
15 18 0.62
ACGTcount: A:0.47, C:0.29, G:0.02, T:0.22
Consensus pattern (15 bp):
CCATAAAACCTTAAA
Found at i:59856684 original size:7 final size:7
Alignment explanation
Indices: 59856620--59856683 Score: 56
Period size: 7 Copynumber: 9.0 Consensus size: 7
59856610 CCCATGGCCA
59856620 TTAAACC
1 TTAAACC
59856627 TTAAACC
1 TTAAACC
*
59856634 ATAAAACC
1 -TTAAACC
*
59856642 CTAAACC
1 TTAAACC
* *
59856649 ATAGACC
1 TTAAACC
59856656 TTAAACC
1 TTAAACC
**
59856663 TTAAATA
1 TTAAACC
59856670 TTAAACC
1 TTAAACC
*
59856677 CTAAACC
1 TTAAACC
59856684 CAAAAATAAA
Statistics
Matches: 44, Mismatches: 12, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
7 38 0.86
8 6 0.14
ACGTcount: A:0.47, C:0.28, G:0.02, T:0.23
Consensus pattern (7 bp):
TTAAACC
Found at i:59856856 original size:48 final size:46
Alignment explanation
Indices: 59856781--59856913 Score: 164
Period size: 48 Copynumber: 2.8 Consensus size: 46
59856771 TCAACATCCA
59856781 TATGATGTTTTTTGGGGTTTAGGGTTTTAGAGGTTATAGATTAGTGTT
1 TATGAT-TTTTTT-GGGTTTAGGGTTTTAGAGGTTATAGATTAGTGTT
59856829 TAGTG-TTTTTTTAGGGTTTAAGGGTTTTA-AGGGTTATAGATTAGTGTT
1 TA-TGATTTTTTT-GGGTTT-AGGGTTTTAGA-GGTTATAGATTAGTGTT
*
59856877 TATGAACTTTTTTTGGGTTTA-GGTTTTAGGGGTTATA
1 TATG-A-TTTTTTTGGGTTTAGGGTTTTAGAGGTTATA
59856914 TGACTTTTTG
Statistics
Matches: 76, Mismatches: 2, Indels: 15
0.82 0.02 0.16
Matches are distributed among these distances:
47 29 0.38
48 32 0.42
49 8 0.11
50 7 0.09
ACGTcount: A:0.20, C:0.01, G:0.29, T:0.50
Consensus pattern (46 bp):
TATGATTTTTTTGGGTTTAGGGTTTTAGAGGTTATAGATTAGTGTT
Found at i:59857097 original size:41 final size:41
Alignment explanation
Indices: 59856937--59857086 Score: 239
Period size: 41 Copynumber: 3.7 Consensus size: 41
59856927 CGTTTTTTCT
*
59856937 CAAAAA-GCCGCTATTGCTCTATTTTTTAGCAGCGTTTGAC
1 CAAAAACGCCGCTATTGCTCTATTTTTTAGCTGCGTTTGAC
*
59856977 CAAAAACGCCGCTATTGCTCTATTTTTTAGCTGCGTCTGAC
1 CAAAAACGCCGCTATTGCTCTATTTTTTAGCTGCGTTTGAC
* *
59857018 CAAAAACGCCGCTATTGCTCTGTTTTTTAGCTGCGTTTTAC
1 CAAAAACGCCGCTATTGCTCTATTTTTTAGCTGCGTTTGAC
*
59857059 CAAAAAACGCTGCTATTGCTCTATTTTT
1 C-AAAAACGCCGCTATTGCTCTATTTTT
59857087 AGCGACGTTT
Statistics
Matches: 101, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
40 6 0.06
41 71 0.70
42 24 0.24
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (41 bp):
CAAAAACGCCGCTATTGCTCTATTTTTTAGCTGCGTTTGAC
Found at i:59857498 original size:19 final size:20
Alignment explanation
Indices: 59857471--59857515 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
59857461 ATAAAGTACA
* *
59857471 TTCTCTATTGC-TTCTTATT
1 TTCTTTATTGCTTTCATATT
59857490 TTCTTTATTGCTTTCATATT
1 TTCTTTATTGCTTTCATATT
59857510 TTCTTT
1 TTCTTT
59857516 GTTCTTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.11, C:0.18, G:0.04, T:0.67
Consensus pattern (20 bp):
TTCTTTATTGCTTTCATATT
Found at i:59860396 original size:28 final size:28
Alignment explanation
Indices: 59860372--59860441 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
59860362 CTTATATATG
*
59860372 TGCAAAAATACAAACTTTGTAATATAAA
1 TGCAAAAATACAAACTTTGAAATATAAA
* *
59860400 TTCAAAAATATAAACTTTGAAATATAAA
1 TGCAAAAATACAAACTTTGAAATATAAA
59860428 TGCAAAAATACAAA
1 TGCAAAAATACAAA
59860442 AGTTATAATA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.57, C:0.10, G:0.06, T:0.27
Consensus pattern (28 bp):
TGCAAAAATACAAACTTTGAAATATAAA
Found at i:59860451 original size:28 final size:28
Alignment explanation
Indices: 59860372--59860456 Score: 109
Period size: 28 Copynumber: 3.0 Consensus size: 28
59860362 CTTATATATG
*
59860372 TGCAAAAATACAAACTTTGTAATATAAA
1 TGCAAAAATACAAACTTTATAATATAAA
* *
59860400 TTCAAAAATATAAACTTTGA-AATATAAA
1 TGCAAAAATACAAACTTT-ATAATATAAA
**
59860428 TGCAAAAATACAAAAGTTATAATATAAA
1 TGCAAAAATACAAACTTTATAATATAAA
59860456 T
1 T
59860457 TAAATTCATT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
27 1 0.02
28 47 0.98
ACGTcount: A:0.56, C:0.08, G:0.06, T:0.29
Consensus pattern (28 bp):
TGCAAAAATACAAACTTTATAATATAAA
Found at i:59862846 original size:48 final size:48
Alignment explanation
Indices: 59862729--59862848 Score: 118
Period size: 48 Copynumber: 2.5 Consensus size: 48
59862719 GATCTCGTGC
*
59862729 AAGACCATGTCTGGGACATGGCATTGGCATCGATACTAGATCACGTGT
1 AAGACCATGTCTGGGACATGGCATTGGCATCGATACTAGATCACGTAT
* * * * * * * **
59862777 AAGACCATAT-TCGAGATATGGCTTTGGCATTGTTAAGT-GATTTCGTAT
1 AAGACCATGTCT-GGGACATGGCATTGGCATCGAT-ACTAGATCACGTAT
59862825 AAGACCATGTCTGGGACATGGCAT
1 AAGACCATGTCTGGGACATGGCAT
59862849 CGAAATAAGG
Statistics
Matches: 55, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
47 1 0.02
48 51 0.93
49 3 0.05
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (48 bp):
AAGACCATGTCTGGGACATGGCATTGGCATCGATACTAGATCACGTAT
Found at i:59865159 original size:2 final size:2
Alignment explanation
Indices: 59865152--59865180 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
59865142 CATCTTATGC
59865152 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
59865181 CTTAAGCCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:59865841 original size:42 final size:42
Alignment explanation
Indices: 59865795--59865907 Score: 138
Period size: 43 Copynumber: 2.7 Consensus size: 42
59865785 GATCATACCA
* * ** *
59865795 ATGCCGTATCCTAGATATGGTCTTACATGGGATCTCATATCG
1 ATGCCATATCCTAGATATGGTCTTACACGAAACCTCATATCG
* *
59865837 ATGCCAATAGCCTAGCTATGGTCTTACACGAAACCTCATATCG
1 ATGCC-ATATCCTAGATATGGTCTTACACGAAACCTCATATCG
59865880 ATGCCATAT-CTCAGATATGGTCTTACAC
1 ATGCCATATCCT-AGATATGGTCTTACAC
59865908 ATAATCTCAA
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
41 2 0.03
42 23 0.38
43 35 0.58
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCTAGATATGGTCTTACACGAAACCTCATATCG
Found at i:59868838 original size:39 final size:39
Alignment explanation
Indices: 59868754--59868906 Score: 216
Period size: 39 Copynumber: 3.9 Consensus size: 39
59868744 TATGGTAACC
** * *
59868754 CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
59868794 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
59868833 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
59868872 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
59868907 TCGAACATTC
Statistics
Matches: 101, Mismatches: 12, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
39 86 0.85
40 15 0.15
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:59868880 original size:78 final size:79
Alignment explanation
Indices: 59868723--59868905 Score: 269
Period size: 78 Copynumber: 2.3 Consensus size: 79
59868713 TCGTTCAAAC
* * **
59868723 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
59868788 ACAATTTGCACAATT
65 ACAATTTGCACAATT
* ** * *
59868803 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGGTATCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
59868867 CAATTTGCACAATT
66 CAATTTGCACAATT
59868881 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
59868906 CTCGAACATT
Statistics
Matches: 94, Mismatches: 9, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
78 53 0.56
79 32 0.34
80 9 0.10
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.25
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
CAATTTGCACAATT
Found at i:59876898 original size:38 final size:39
Alignment explanation
Indices: 59876785--59876927 Score: 234
Period size: 39 Copynumber: 3.7 Consensus size: 39
59876775 CCGCACAAAG
*
59876785 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCACAATTTGCACAATT
* * *
59876825 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
59876864 GCCTTCGGGCTTAGCCCGG-TATCACAATTTGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
59876902 GCCTTCGGGCTTAGCCCGGATATCAC
1 GCCTTCGGGCTTAGCCCGGATATCAC
59876928 TCGAACATTC
Statistics
Matches: 95, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
38 35 0.37
39 51 0.54
40 9 0.09
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
Found at i:59876906 original size:77 final size:79
Alignment explanation
Indices: 59876745--59876926 Score: 269
Period size: 77 Copynumber: 2.3 Consensus size: 79
59876735 TCGTTCAAAC
* * **
59876745 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
59876810 ACAATTTGCACAATT
65 ACAATTTGCACAATT
* ** *
59876825 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGG-TATCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
59876888 CAATTTGCACAATT
66 CAATTTGCACAATT
59876902 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
59876927 CTCGAACATT
Statistics
Matches: 94, Mismatches: 8, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
77 44 0.47
78 9 0.10
79 32 0.34
80 9 0.10
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.25
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
CAATTTGCACAATT
Found at i:59884075 original size:84 final size:84
Alignment explanation
Indices: 59883934--59884103 Score: 340
Period size: 84 Copynumber: 2.0 Consensus size: 84
59883924 ACAACAGCTC
59883934 AAAAGACTAGCAGTGAATTACATCAGTACACAGCAACAGATGCTACATAGCAATTAATGTTACAG
1 AAAAGACTAGCAGTGAATTACATCAGTACACAGCAACAGATGCTACATAGCAATTAATGTTACAG
59883999 CTTTCAGAGACGTATCTAT
66 CTTTCAGAGACGTATCTAT
59884018 AAAAGACTAGCAGTGAATTACATCAGTACACAGCAACAGATGCTACATAGCAATTAATGTTACAG
1 AAAAGACTAGCAGTGAATTACATCAGTACACAGCAACAGATGCTACATAGCAATTAATGTTACAG
59884083 CTTTCAGAGACGTATCTAT
66 CTTTCAGAGACGTATCTAT
59884102 AA
1 AA
59884104 TCTAAGTTCA
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 86 1.00
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (84 bp):
AAAAGACTAGCAGTGAATTACATCAGTACACAGCAACAGATGCTACATAGCAATTAATGTTACAG
CTTTCAGAGACGTATCTAT
Found at i:59888984 original size:42 final size:42
Alignment explanation
Indices: 59888873--59889034 Score: 198
Period size: 42 Copynumber: 3.8 Consensus size: 42
59888863 TACCGTACCA
* * * **
59888873 ATGCCATATCCCAGACATGGTCTTACATGTACTCTTGTATCG
1 ATGCCATATCCCAGATATGGTCTTACATGAAGTCTCATATCG
* *
59888915 ATGCCAATAGCCCAGCTATGGTCTTACATGAAGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACATGAAGTCTCATATCG
* * * *
59888958 GTGCCATATCCCAGGTATGGTCTTACACGAAGTCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACATGAAGTCTCATATCG
* *
59889000 ATGCCATATCCCAGATATGGTCTTATATGTAGTCT
1 ATGCCATATCCCAGATATGGTCTTACATGAAGTCT
59889035 TAGTAACCCT
Statistics
Matches: 102, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
42 68 0.67
43 34 0.33
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGAAGTCTCATATCG
Found at i:59896600 original size:40 final size:40
Alignment explanation
Indices: 59896522--59896689 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
59896512 CGGATGATAA
* * **
59896522 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGTTATAT
* * * *
59896562 CCGGGTTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTG-TTATAT
* *
59896602 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGTTATAT
* * * * *
59896642 CTGGGCTAAGACTCGAAGGCATTTGTGTGAGTTGTTATGT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGTTATAT
59896682 CC-GGCTAA
1 CCGGGCTAA
59896690 ATCTTGAAGA
Statistics
Matches: 106, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 8 0.08
40 96 0.91
41 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.30
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGTTATAT
Found at i:59896966 original size:22 final size:22
Alignment explanation
Indices: 59896926--59896967 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
59896916 GAATGTGCAT
*
59896926 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
59896948 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
59896968 TCAAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:59898925 original size:19 final size:19
Alignment explanation
Indices: 59898892--59898930 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
59898882 CCTACACAAC
*
59898892 AACATATAACAACAATCAA
1 AACATATAACAACAACCAA
59898911 AACATAT-ACATACAACCAA
1 AACATATAACA-ACAACCAA
59898930 A
1 A
59898931 TCAGCCATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.62, C:0.23, G:0.00, T:0.15
Consensus pattern (19 bp):
AACATATAACAACAACCAA
Found at i:59899644 original size:43 final size:42
Alignment explanation
Indices: 59899580--59899733 Score: 184
Period size: 42 Copynumber: 3.6 Consensus size: 42
59899570 CACCGTACTA
** *
59899580 ATGCCATATCGTAGACATGGTCTTACATGTAA-TCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACATG-AAGTCTCATATCG
* * **
59899622 ATGCCAATAGCCCAGCTATGGTCTTACACAAAGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACATGAAGTCTCATATCG
* * *
59899665 ATGCCATATCCCGGATATGGTCTTGCATGAAGTCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACATGAAGTCTCATATCG
*
59899707 ATGCCATATCCCATATATGGTCTTACA
1 ATGCCATATCCCAGATATGGTCTTACA
59899734 CGTAGTCTTA
Statistics
Matches: 93, Mismatches: 17, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
42 61 0.66
43 32 0.34
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGAAGTCTCATATCG
Found at i:59902434 original size:48 final size:48
Alignment explanation
Indices: 59902348--59902570 Score: 356
Period size: 48 Copynumber: 4.6 Consensus size: 48
59902338 TAAGGTCTCA
* * *
59902348 TGTAAGACCATGTTTGGGACATGGCAGCGGTGTTGATATGTGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGAGCCAG
* * *
59902396 TGTGAGACCATGTCTGGGACATGGCATCGGCGTGGATATGTGAGCCAA
1 TGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGAGCCAG
* *
59902444 TGTAAGACCATGTTTGGGACATGGCATTGGCGTTGATATGTGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGAGCCAG
**
59902492 TGTAAGACCATGTCTGGGACATGGCATCAACGTTGATATGTGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGAGCCAG
59902540 TGTAAGACCATGTCTGGGACATGGCATCGGC
1 TGTAAGACCATGTCTGGGACATGGCATCGGC
59902571 ACTGACATGA
Statistics
Matches: 158, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 158 1.00
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.26
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGAGCCAG
Found at i:59905201 original size:37 final size:35
Alignment explanation
Indices: 59905141--59905239 Score: 110
Period size: 34 Copynumber: 2.8 Consensus size: 35
59905131 ACGCCACTCA
* *
59905141 TCTTTCAATTAACATCGTACCACAACACTGAAACTT
1 TCTTTCAATTAACATCCTGCCACAACACTGAAAC-T
* * *
59905177 CTCTTTCAATTAAAATCCTGCCAC-ACGCTGATACT
1 -TCTTTCAATTAACATCCTGCCACAACACTGAAACT
* *
59905212 TCATTCAATTAACGTCCTGCCACAACAC
1 TCTTTCAATTAACATCCTGCCACAACAC
59905240 CCATACTTCA
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
34 20 0.38
35 4 0.08
36 8 0.15
37 20 0.38
ACGTcount: A:0.32, C:0.31, G:0.07, T:0.29
Consensus pattern (35 bp):
TCTTTCAATTAACATCCTGCCACAACACTGAAACT
Found at i:59906924 original size:40 final size:40
Alignment explanation
Indices: 59906843--59906944 Score: 145
Period size: 40 Copynumber: 2.6 Consensus size: 40
59906833 CAACCAAGTA
* ** *
59906843 CCTTCGGGATTTAG-CCGGACATAGCTACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGCTACTCGCACAAATG
59906882 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGCT-ACTCGCACAAATG
59906922 CCTTCGGGACTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
59906945 CATCTGAATA
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
39 14 0.25
40 43 0.75
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGCTACTCGCACAAATG
Found at i:59920789 original size:7 final size:6
Alignment explanation
Indices: 59920769--59920799 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
59920759 TTCAACATAT
59920769 AAATAA AAATAA AAATAAA AAATAA AAATAA
1 AAATAA AAATAA AAAT-AA AAATAA AAATAA
59920800 TAGGTGTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 18 0.75
7 6 0.25
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:59920791 original size:13 final size:13
Alignment explanation
Indices: 59920769--59920799 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
59920759 TTCAACATAT
59920769 AAAT-AAAAATAA
1 AAATAAAAAATAA
59920781 AAATAAAAAATAA
1 AAATAAAAAATAA
59920794 AAATAA
1 AAATAA
59920800 TAGGTGTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.22
13 14 0.78
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
AAATAAAAAATAA
Found at i:59924368 original size:40 final size:40
Alignment explanation
Indices: 59924331--59924556 Score: 298
Period size: 40 Copynumber: 5.7 Consensus size: 40
59924321 GCTACTCGTT
*
59924331 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
59924371 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
59924411 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
59924451 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
59924491 CGAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
59924532 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
59924557 CATCATTCGA
Statistics
Matches: 170, Mismatches: 12, Indels: 8
0.89 0.06 0.04
Matches are distributed among these distances:
39 3 0.02
40 155 0.91
41 12 0.07
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:59932637 original size:80 final size:80
Alignment explanation
Indices: 59932525--59932750 Score: 287
Period size: 80 Copynumber: 2.8 Consensus size: 80
59932515 GCTACTCGTT
* * * *
59932525 CAAATGCCTTCGGGA-CATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
*
59932589 GATTTAGTAACTCGCA
65 GATTTAGTAACTCACA
* * * *
59932605 CAAATGCCTTCGGATCTTAGTTCGGATTTAGTAACTCGCACAAATGCCTTC-AGATCTTAGTCCG
1 CAAATGCCTTCGGATCTTAGTCCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCG
59932669 GATTTAGTAACTCACA
65 GATTTAGTAACTCACA
* ** *
59932685 CGAATGCCTTCGGATCTTAGTCCGGATATAGCCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGATCTTAGTCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
59932749 GA
65 GA
59932751 CATCATTCGA
Statistics
Matches: 125, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
79 5 0.04
80 110 0.88
81 10 0.08
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCGGATCTTAGTCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
ATTTAGTAACTCACA
Found at i:59932701 original size:40 final size:40
Alignment explanation
Indices: 59932525--59932750 Score: 255
Period size: 40 Copynumber: 5.7 Consensus size: 40
59932515 GCTACTCGTT
* *
59932525 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTAACTCGCA
**
59932565 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
*
59932605 CAAATGCCTTCGGATCTTAGTTCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
* *
59932645 CAAATGCCTTCAGATCTTAGTCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
* * ** *
59932685 CGAATGCCTTCGGATCTTAGTCCGGATATAGCCACTTAGCA
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAAC-TCGCA
*
59932726 CAAA-GCCTTCGGGA-CTTAGCCCGGA
1 CAAATGCCTTC-GGATCTTAGTCCGGA
59932751 CATCATTCGA
Statistics
Matches: 165, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
39 3 0.02
40 151 0.92
41 11 0.07
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
Found at i:59937543 original size:41 final size:41
Alignment explanation
Indices: 59937498--59937615 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
59937488 TGAAAGATAA
59937498 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
59937539 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
59937569 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
59937610 ATGTAG
1 ATGTAG
59937616 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:59937547 original size:71 final size:71
Alignment explanation
Indices: 59937466--59937629 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
59937456 GAGATGTATC
*
59937466 CCATGTAGACAAGAGAGTTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
59937531 AGGACA
66 AGGACA
59937537 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
59937602 AGGACA
66 AGGACA
59937608 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
59937630 AGACAAATCG
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 92 1.00
ACGTcount: A:0.35, C:0.17, G:0.28, T:0.20
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:59939444 original size:13 final size:13
Alignment explanation
Indices: 59939426--59939452 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
59939416 GCTCGACAGG
59939426 GACACGCCCGTGT
1 GACACGCCCGTGT
59939439 GACACGCCCGTGT
1 GACACGCCCGTGT
59939452 G
1 G
59939453 CGATTGCTTC
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:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:59941595 original size:68 final size:67
Alignment explanation
Indices: 59941523--59941672 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
59941513 CATCATGTGT
* * * *
59941523 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
59941585 ATGTAG
62 ATGTAG
** * *
59941591 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
59941656 AG
66 AG
59941658 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
59941673 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:59941628 original size:64 final size:64
Alignment explanation
Indices: 59941547--59941730 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
59941537 AGACATTATG
* *
59941547 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
59941611 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
59941676 AA
63 AA
* * * *
59941678 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
59941731 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:59955562 original size:2 final size:2
Alignment explanation
Indices: 59955555--59955585 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
59955545 TCATGACATG
59955555 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
59955586 GACTAGTCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:59959245 original size:29 final size:29
Alignment explanation
Indices: 59959212--59959303 Score: 161
Period size: 29 Copynumber: 3.2 Consensus size: 29
59959202 GTGACGAGAT
59959212 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
59959241 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
59959270 TGGCACTAAGTGTGCATGCT--AAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
59959297 CGGCACT
1 TGGCACT
59959304 GGGTGTGCGA
Statistics
Matches: 62, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
27 13 0.21
29 49 0.79
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:59959328 original size:56 final size:57
Alignment explanation
Indices: 59959208--59959340 Score: 155
Period size: 56 Copynumber: 2.4 Consensus size: 57
59959198 TACGGTGACG
* *
59959208 AGAT-TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAA
1 AGATATGGCACTAAGTGTGCATGCT-GAAATATACGGCACTAAGTGTGCATGCTCGAA
* **
59959265 ATATATGGCACTAAGTGTGCATGCT-AAATATACGGCACTGGGTGTGCGA-GCTCGAA
1 AGATATGGCACTAAGTGTGCATGCTGAAATATACGGCACTAAGTGTGC-ATGCTCGAA
* * *
59959321 GGGTATGGCACTATGTGTGC
1 AGATATGGCACTAAGTGTGC
59959341 GGGCTTAAAT
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
56 41 0.63
57 4 0.06
58 20 0.31
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (57 bp):
AGATATGGCACTAAGTGTGCATGCTGAAATATACGGCACTAAGTGTGCATGCTCGAA
Found at i:59961805 original size:53 final size:53
Alignment explanation
Indices: 59961641--59961829 Score: 171
Period size: 53 Copynumber: 3.5 Consensus size: 53
59961631 ACCAAGTAAT
* * * * * * * *
59961641 CATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGCAAGGAAATCATGTAAGAC
1 CATGCCAAGACATGGCAATGGTAAG-TTCATAAGGCAAAGATACCACGTAAGAC
* * * * * * *
59961695 CATGTCAAGACATGGCATTGATAAACTACTATAAGGCAAAGATCCCATGTAAGAC
1 CATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGCAAAGATACCACGTAAGAC
* * * *
59961750 CATGCCAAGGCCTGGCAATGGTGAGTTCATAAGGCAAGGATACCACGTAAGAC
1 CATGCCAAGACATGGCAATGGTAAGTTCATAAGGCAAAGATACCACGTAAGAC
*
59961803 CATGTCAAGACATGGCAATGGTAAGTT
1 CATGCCAAGACATGGCAATGGTAAGTT
59961830 TAAAAGGGAA
Statistics
Matches: 107, Mismatches: 26, Indels: 5
0.78 0.19 0.04
Matches are distributed among these distances:
53 45 0.42
54 23 0.21
55 39 0.36
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.21
Consensus pattern (53 bp):
CATGCCAAGACATGGCAATGGTAAGTTCATAAGGCAAAGATACCACGTAAGAC
Found at i:59964920 original size:33 final size:32
Alignment explanation
Indices: 59964883--59964975 Score: 113
Period size: 33 Copynumber: 3.0 Consensus size: 32
59964873 GCAGTAATAG
*
59964883 TCTGGGCCTAAGCCCTATTCAGTAACAGTACAA
1 TCTGGGCCTAAGCCCTATACAGTAACAGTAC-A
*
59964916 TCTGGGCCTTAGCCCTATACAGTAACAG--C-
1 TCTGGGCCTAAGCCCTATACAGTAACAGTACA
* *
59964945 T-TGGGCCTAAGCTCAATACAGTAACAGTACA
1 TCTGGGCCTAAGCCCTATACAGTAACAGTACA
59964976 GTCTAATGCA
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
28 23 0.44
29 1 0.02
30 1 0.02
31 1 0.02
33 26 0.50
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (32 bp):
TCTGGGCCTAAGCCCTATACAGTAACAGTACA
Found at i:59966574 original size:29 final size:29
Alignment explanation
Indices: 59966539--59966700 Score: 252
Period size: 29 Copynumber: 5.6 Consensus size: 29
59966529 ATAAACGATC
*** *
59966539 TCGCACACTTAGTGCCATGCGATTTAAGC
1 TCGCACACTTAGTGCCATATAATTTAAGT
*
59966568 TCGCACACATAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGT
*
59966597 TTGCACACTTAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGT
*
59966626 CCGCACACTTAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGT
*
59966655 TTGCACACTTAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGT
59966684 TCGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
59966701 ATCTTGTCAC
Statistics
Matches: 121, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 121 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (29 bp):
TCGCACACTTAGTGCCATATAATTTAAGT
Done.