Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 84 of 208
Found at i:24746356 original size:89 final size:90
Alignment explanation
Indices: 24746186--24746394 Score: 237
Period size: 89 Copynumber: 2.3 Consensus size: 90
24746176 AACGACCATT
* * * * *
24746186 AAATAATGAAAAGGGATGGTGATGACCATCGAACAATGAAAAGGGATGGCTTCGGCTATCCAACT
1 AAATTATGAAAAGGGATGGTGACGACCATCGAACAATGAAAAGGGATGGCTACGACTATCCAAAT
* *
24746251 GTAAAAATGGAGAGCTTCGGCTATC
66 ATAAAAAGGGAGAGCTTCGGCTATC
24746276 AAATTATGAAAAGGGATGGTGACGACCATC-AACAATGAAAAGGGATGG-TGACGACTAT-CAAA
1 AAATTATGAAAAGGGATGGTGACGACCATCGAACAATGAAAAGGGATGGCT-ACGACTATCCAAA
* * *
24746338 TAATGAAAAGGGATAGCTTCGGTTATC
65 T-ATAAAAAGGGAGAGCTTCGGCTATC
* ** * *
24746365 GAGCTATGAAAAGGGTTGG-GACAACCATCG
1 AAATTATGAAAAGGGATGGTGACGACCATCG
24746395 TGATTTTATT
Statistics
Matches: 101, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
88 14 0.14
89 59 0.58
90 28 0.28
ACGTcount: A:0.38, C:0.14, G:0.27, T:0.21
Consensus pattern (90 bp):
AAATTATGAAAAGGGATGGTGACGACCATCGAACAATGAAAAGGGATGGCTACGACTATCCAAAT
ATAAAAAGGGAGAGCTTCGGCTATC
Found at i:24753025 original size:75 final size:75
Alignment explanation
Indices: 24752939--24753086 Score: 260
Period size: 75 Copynumber: 2.0 Consensus size: 75
24752929 AGAAAACCAT
* * *
24752939 GATTATTCCCTTATTAATAGAGAAGGCAAATGGAAAGTTAGAAAAATGAATTATATTCTTTTCAA
1 GATTATTCCCTTATTAATAGAGAAGACAAATGAAAAGTTAGAAAAATGAATTATATTCTTTCCAA
24753004 AAGAATATAA
66 AAGAATATAA
*
24753014 GATTATTCCCTTATTAATAGAGAAGACAAATGAAAAGTTAGAAAAATGAATTTTATTCTTTCCAA
1 GATTATTCCCTTATTAATAGAGAAGACAAATGAAAAGTTAGAAAAATGAATTATATTCTTTCCAA
24753079 AAGAATAT
66 AAGAATAT
24753087 TAATTATCAT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
75 69 1.00
ACGTcount: A:0.45, C:0.09, G:0.14, T:0.32
Consensus pattern (75 bp):
GATTATTCCCTTATTAATAGAGAAGACAAATGAAAAGTTAGAAAAATGAATTATATTCTTTCCAA
AAGAATATAA
Found at i:24753280 original size:141 final size:138
Alignment explanation
Indices: 24753062--24753770 Score: 971
Period size: 141 Copynumber: 5.0 Consensus size: 138
24753052 TAGAAAAATG
* *
24753062 AATTTTATTCTTTCCAAAAGAATATTAATTATCATGTCTTTTATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAA
* * *
24753127 TATAATTGTTTATATTAATAAATTTC-ATAAAATATATACAATTAATTATATTCTATGAATCAAA
66 TATAATTGTTTATATTAATAAA-TTCGGTAAAATATATACAATTAA-TATTTTGTATGAATCAAA
24753191 TTCATATATATT
129 TTC--ATATATT
*
24753203 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCAAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAA
24753268 TATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
66 TATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
24753333 CATATATT
131 CATATATT
* * * * * *
24753341 AATTATATTATTTTCAAAAGAATATTAATTTCCATATATTTTATATTTTGATCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAA
** *
24753406 TATAATTGTTTATATTAATAAATTTAGTAAAAATATATAAACAAATAATATTTTGTATGAATCAA
66 TATAATTGTTTATATTAATAAATTCGGT-AAAATATAT--ACAATTAATATTTTGTATGAATCAA
24753471 ATTCATATATT
128 ATTCATATATT
* * *
24753482 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTATTTTACATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAA
*
24753547 TACAATTG-TT-TATTAATAAATTCGGTAAAA-AGTATACAATTAATATTTTGTATGAATCAAAT
66 TATAATTGTTTATATTAATAAATTCGGTAAAATA-TATACAATTAATATTTTGTATGAATCAAAT
24753609 TC--ATATT
130 TCATATATT
24753616 AATTATATTCTTTCCAAAAGAATATTAATTTTCAATATTAATTTTCATGTCTTTTATATTTTGAC
1 AATTATATTCTTTCCAAAAG-------------AATATTAATTTTCATGTCTTTTATATTTTGAC
* * * * *
24753681 CAAAATTTATTAATATAATTGTTTTTATTAATAAATTCGGTAAAATATATACAATTAATTTTTTA
53 CGAAATTAATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTG
24753746 TATGAATCAAATTCATATATT
118 TATGAATCAAATTCATATATT
24753767 AATT
1 AATT
24753771 TTATCTATGT
Statistics
Matches: 512, Mismatches: 33, Indels: 36
0.88 0.06 0.06
Matches are distributed among these distances:
134 25 0.05
136 28 0.05
137 1 0.00
138 98 0.19
139 23 0.04
140 24 0.05
141 204 0.40
147 47 0.09
148 2 0.00
149 50 0.10
150 1 0.00
151 9 0.02
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (138 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAA
TATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
CATATATT
Found at i:24753419 original size:279 final size:275
Alignment explanation
Indices: 24753062--24753765 Score: 956
Period size: 279 Copynumber: 2.5 Consensus size: 275
24753052 TAGAAAAATG
* * *
24753062 AATTTTATTCTTTCCAAAAGAATATTAATTAT-CATGTCTTTTATATTTTGACCGAAATTAATTA
1 AATTATATTCTTTCCAAAAGAATATTAATT-TCCATATATTTTATATTTTGACCGAAATTAATTA
* *
24753126 ATATAATTGTTTATATTAATAAATTTCATAAAATATATACAATTAATTATATTCTATGAATCAAA
65 ATATAATTGTTTATATTAATAAATTTCATAAAATATATACAATTAATTATTTTATATGAATCAAA
* * *
24753191 TTCATATATATTAATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACC
130 TTCATATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTATTTTACATTTTGACC
*
24753256 AAAATTAATTAATATAATTGTTTATATTAATAAATTCGGTAAAATA-TATACAATTAATATTTTG
195 AAAATTAATTAATACAATTG-TT-TATTAATAAATTCGGTAAAA-AGTATACAATTAATATTTTG
24753320 TATGAATCAAATTCATATATT
257 TATGAATCAAATTC--ATATT
* * *
24753341 AATTATATTATTTTCAAAAGAATATTAATTTCCATATATTTTATATTTTGATCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATATATTTTATATTTTGACCGAAATTAATTAA
* *
24753406 TATAATTGTTTATATTAATAAATTT-AGTAAAAATATATAAACAAATAA-TATTTTGTATGAATC
66 TATAATTGTTTATATTAATAAATTTCA-T-AAAATATAT--ACAATTAATTATTTTATATGAATC
24753469 AAATTC--ATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTATTTTACATTTTG
127 AAATTCATATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTATTTTACATTTTG
*
24753532 ACCGAAATTAATTAATACAATTGTTTATTAATAAATTCGGTAAAAAGTATACAATTAATATTTTG
192 ACCAAAATTAATTAATACAATTGTTTATTAATAAATTCGGTAAAAAGTATACAATTAATATTTTG
24753597 TATGAATCAAATTCATATT
257 TATGAATCAAATTCATATT
*
24753616 AATTATATTCTTTCCAAAAGAATATTAATTTTCAATATTAATTTTCATGTCTTTTATATTTTGAC
1 AATTATATTCTTTCCAAAAGAATATTAA-TTTC--CA-T-A---T-A----TTTTATATTTTGAC
* * * *
24753681 CAAAATTTATTAATATAATTGTTTTTATTAATAAA-TTCGGTAAAATATATACAATTAATT-TTT
53 CGAAATTAATTAATATAATTGTTTATATTAATAAATTTC-ATAAAATATATACAATTAATTATTT
24753744 TATATGAATCAAATTCATATAT
117 TATATGAATCAAATTCATATAT
24753766 TAATTTTATC
Statistics
Matches: 377, Mismatches: 24, Indels: 40
0.85 0.05 0.09
Matches are distributed among these distances:
275 31 0.08
276 5 0.01
277 52 0.14
278 5 0.01
279 159 0.42
280 10 0.03
281 19 0.05
282 7 0.02
283 1 0.00
284 1 0.00
285 25 0.07
286 1 0.00
287 15 0.04
288 46 0.12
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (275 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTCCATATATTTTATATTTTGACCGAAATTAATTAA
TATAATTGTTTATATTAATAAATTTCATAAAATATATACAATTAATTATTTTATATGAATCAAAT
TCATATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTATTTTACATTTTGACCA
AAATTAATTAATACAATTGTTTATTAATAAATTCGGTAAAAAGTATACAATTAATATTTTGTATG
AATCAAATTCATATT
Found at i:24753654 original size:13 final size:13
Alignment explanation
Indices: 24753636--24753662 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
24753626 TTTCCAAAAG
24753636 AATATTAATTTTC
1 AATATTAATTTTC
24753649 AATATTAATTTTC
1 AATATTAATTTTC
24753662 A
1 A
24753663 TGTCTTTTAT
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:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (13 bp):
AATATTAATTTTC
Found at i:24756115 original size:20 final size:20
Alignment explanation
Indices: 24756090--24756127 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
24756080 CTTAATCGAG
**
24756090 GATAATTATTTATTTAATTA
1 GATAATTAAATATTTAATTA
24756110 GATAATTAAATATTTAAT
1 GATAATTAAATATTTAAT
24756128 CGATCATACG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (20 bp):
GATAATTAAATATTTAATTA
Found at i:24760609 original size:43 final size:43
Alignment explanation
Indices: 24760561--24760648 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
24760551 AGTAATTATT
24760561 TTATGTAATTAATTTAATATTAATTTCTCAAATCTACAATCCC
1 TTATGTAATTAATTTAATATTAATTTCTCAAATCTACAATCCC
*
24760604 TTATGTAATTAATTTAATATTAATTTTTCAAATCTACAATCCC
1 TTATGTAATTAATTTAATATTAATTTCTCAAATCTACAATCCC
24760647 TT
1 TT
24760649 GGGTACGATC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.36, C:0.15, G:0.02, T:0.47
Consensus pattern (43 bp):
TTATGTAATTAATTTAATATTAATTTCTCAAATCTACAATCCC
Found at i:24761918 original size:9 final size:9
Alignment explanation
Indices: 24761904--24761979 Score: 84
Period size: 9 Copynumber: 8.4 Consensus size: 9
24761894 TTTGGTTAAA
24761904 AATTAACCG
1 AATTAACCG
*
24761913 AATTAACTG
1 AATTAACCG
* *
24761922 AATTATCTG
1 AATTAACCG
24761931 AATTAACCG
1 AATTAACCG
24761940 AATT-ACCTG
1 AATTAACC-G
24761949 AATT-ACCTG
1 AATTAACC-G
24761958 AATTAACCG
1 AATTAACCG
*
24761967 AATTAACCT
1 AATTAACCG
24761976 AATT
1 AATT
24761980 GAATCATACA
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
8 3 0.05
9 54 0.90
10 3 0.05
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (9 bp):
AATTAACCG
Found at i:24761979 original size:27 final size:28
Alignment explanation
Indices: 24761904--24761979 Score: 122
Period size: 27 Copynumber: 2.8 Consensus size: 28
24761894 TTTGGTTAAA
*
24761904 AATTAACCGAATTAA-CTGAATTATCTG
1 AATTAACCGAATTAACCTGAATTACCTG
24761931 AATTAACCGAATT-ACCTGAATTACCTG
1 AATTAACCGAATTAACCTGAATTACCTG
24761958 AATTAACCGAATTAACCT-AATT
1 AATTAACCGAATTAACCTGAATT
24761980 GAATCATACA
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
26 1 0.02
27 41 0.89
28 4 0.09
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (28 bp):
AATTAACCGAATTAACCTGAATTACCTG
Found at i:24764822 original size:40 final size:40
Alignment explanation
Indices: 24764762--24764942 Score: 247
Period size: 40 Copynumber: 4.5 Consensus size: 40
24764752 TGTAAACAGA
*
24764762 GGCAAGTATGTGCAATCAGGGGTACCAAAGTACAAAAAAG
1 GGCACGTATGTGCAATCAGGGGTACCAAAGTACAAAAAAG
** * *
24764802 GGCGTGTATGTGCAATCAGGGGTAACAAAGTACAAACAAG
1 GGCACGTATGTGCAATCAGGGGTACCAAAGTACAAAAAAG
* *
24764842 GGCACGTATGTGCAATCAGGGGTACCGAAGTAC-AAACAG
1 GGCACGTATGTGCAATCAGGGGTACCAAAGTACAAAAAAG
* * *
24764881 TGGCACGTATGTGCAATCAGGGATACCAAAGTACAAATAGG
1 -GGCACGTATGTGCAATCAGGGGTACCAAAGTACAAAAAAG
24764922 GGCACGTATGTGCAATTCAGG
1 GGCACGTATGTGCAA-TCAGG
24764943 TATAATTAAC
Statistics
Matches: 123, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
39 4 0.03
40 111 0.90
41 8 0.07
ACGTcount: A:0.36, C:0.17, G:0.29, T:0.18
Consensus pattern (40 bp):
GGCACGTATGTGCAATCAGGGGTACCAAAGTACAAAAAAG
Found at i:24772239 original size:40 final size:40
Alignment explanation
Indices: 24772195--24772332 Score: 179
Period size: 40 Copynumber: 3.4 Consensus size: 40
24772185 AATCAGCGGT
* *
24772195 ACGTATTTGCAATCAGGGGTACTGAAGTAAAAATAGGGGC
1 ACGTATGTGCAATCAGGGGTACTGAAGTACAAATAGGGGC
** *
24772235 ACGTATGTGCAATCAGGGGTACCAAAGTACAAACAGGGGC
1 ACGTATGTGCAATCAGGGGTACTGAAGTACAAATAGGGGC
* * *
24772275 ATGTATGTGTAATTAGGGGTA-TCGAAGTACAAATAGGGGC
1 ACGTATGTGCAATCAGGGGTACT-GAAGTACAAATAGGGGC
24772315 ACGTATGTGCAATTCAGG
1 ACGTATGTGCAA-TCAGG
24772333 TATAATTAAC
Statistics
Matches: 82, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
40 78 0.95
41 4 0.05
ACGTcount: A:0.33, C:0.14, G:0.30, T:0.22
Consensus pattern (40 bp):
ACGTATGTGCAATCAGGGGTACTGAAGTACAAATAGGGGC
Found at i:24772252 original size:20 final size:20
Alignment explanation
Indices: 24772229--24772332 Score: 59
Period size: 20 Copynumber: 5.2 Consensus size: 20
24772219 AAGTAAAAAT
24772229 AGGGGCACGTATGTGCAATC
1 AGGGGCACGTATGTGCAATC
* ** * * *
24772249 AGGGGTACCAAAGTACAAAC
1 AGGGGCACGTATGTGCAATC
* * *
24772269 AGGGGCATGTATGTGTAATT
1 AGGGGCACGTATGTGCAATC
* * *
24772289 AGGGGTATCG-AAGTACAAAT-
1 AGGGGCA-CGTATGTGC-AATC
24772309 AGGGGCACGTATGTGCAATTC
1 AGGGGCACGTATGTGCAA-TC
24772330 AGG
1 AGG
24772333 TATAATTAAC
Statistics
Matches: 56, Mismatches: 23, Indels: 9
0.64 0.26 0.10
Matches are distributed among these distances:
19 4 0.07
20 45 0.80
21 7 0.12
ACGTcount: A:0.32, C:0.14, G:0.33, T:0.21
Consensus pattern (20 bp):
AGGGGCACGTATGTGCAATC
Found at i:24773164 original size:24 final size:23
Alignment explanation
Indices: 24773135--24773204 Score: 81
Period size: 24 Copynumber: 3.0 Consensus size: 23
24773125 AGGTAGGCAA
24773135 CTTCTTTTTTTGCACTTTTTGCTT
1 CTTCTTTTTTTGC-CTTTTTGCTT
* *
24773159 CTTCTTTTTGTG-CTTTTTACTTT
1 CTTCTTTTTTTGCCTTTTTGC-TT
24773182 CTT-TTTTTTTGCTCTTTTTGCTT
1 CTTCTTTTTTTGC-CTTTTTGCTT
24773205 TTTTTCTATT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
22 14 0.36
23 7 0.18
24 18 0.46
ACGTcount: A:0.03, C:0.19, G:0.09, T:0.70
Consensus pattern (23 bp):
CTTCTTTTTTTGCCTTTTTGCTT
Found at i:24773208 original size:22 final size:22
Alignment explanation
Indices: 24773139--24773209 Score: 72
Period size: 22 Copynumber: 3.1 Consensus size: 22
24773129 AGGCAACTTC
* *
24773139 TTTTTTTGCACTTTTTGCTTCT
1 TTTTTTTGCTCTTTTTGCTTTT
* *
24773161 TCTTTTTG-TGCTTTTTACTTTCTT
1 TTTTTTTGCT-CTTTTTGC-TT-TT
24773185 TTTTTTTGCTCTTTTTGCTTTT
1 TTTTTTTGCTCTTTTTGCTTTT
24773207 TTT
1 TTT
24773210 CTATTTTTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
22 19 0.49
23 4 0.10
24 15 0.38
25 1 0.03
ACGTcount: A:0.03, C:0.15, G:0.08, T:0.73
Consensus pattern (22 bp):
TTTTTTTGCTCTTTTTGCTTTT
Found at i:24773823 original size:31 final size:32
Alignment explanation
Indices: 24773768--24773828 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
24773758 AATTACAAGT
24773768 GTAATTGAATCCTAATAAAAACTCTTTAAAGA
1 GTAATTGAATCCTAATAAAAACTCTTTAAAGA
24773800 GTAATTGAATCCTAAT-AAAACTCTTTAAA
1 GTAATTGAATCCTAATAAAAACTCTTTAAA
24773829 ATTATCTAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.45
32 16 0.55
ACGTcount: A:0.46, C:0.13, G:0.08, T:0.33
Consensus pattern (32 bp):
GTAATTGAATCCTAATAAAAACTCTTTAAAGA
Found at i:24780935 original size:33 final size:33
Alignment explanation
Indices: 24780898--24780969 Score: 92
Period size: 33 Copynumber: 2.2 Consensus size: 33
24780888 CCCTTTCTAG
* *
24780898 ATCACTTTCACCATCAGA-TTCTACCCCATCATC
1 ATCACCTTCACCATCA-ACTTCTACCCCATCAAC
* *
24780931 ATCACCTTCCCCATCAACTTCTACCCCTTCAAC
1 ATCACCTTCACCATCAACTTCTACCCCATCAAC
24780964 ATCACC
1 ATCACC
24780970 CTCCCCAGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
32 1 0.03
33 33 0.97
ACGTcount: A:0.26, C:0.44, G:0.01, T:0.28
Consensus pattern (33 bp):
ATCACCTTCACCATCAACTTCTACCCCATCAAC
Found at i:24780975 original size:33 final size:33
Alignment explanation
Indices: 24780908--24780976 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
24780898 ATCACTTTCA
* *
24780908 CCATCAGATTCTACCCCATCATCATCACCTTCC
1 CCATCAGATTCTACCCCATCAACATCACCCTCC
*
24780941 CCATCA-ACTTCTACCCCTTCAACATCACCCTCC
1 CCATCAGA-TTCTACCCCATCAACATCACCCTCC
24780974 CCA
1 CCA
24780977 GTAGTCAACA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
32 1 0.03
33 31 0.97
ACGTcount: A:0.25, C:0.49, G:0.01, T:0.25
Consensus pattern (33 bp):
CCATCAGATTCTACCCCATCAACATCACCCTCC
Found at i:24781662 original size:117 final size:116
Alignment explanation
Indices: 24781456--24781780 Score: 506
Period size: 117 Copynumber: 2.8 Consensus size: 116
24781446 GGTAACAAAA
* *
24781456 ATCAACAGCATCGGGACCACTGTCACATCACAAATCGACAAAACAAAACCTACATTGTGGCACTA
1 ATCAACAACATCGGGACCACTGTCACATCACAAATCGACAAAAC-AAACCTACATTGTGGCACTG
* *
24781521 AAATTGCAATAATAAATCACAAATAACCATCTACAATTTTAACAACAGCTTT
65 AAATTGCAATAATAAATCACAAATAACCATCTACAAGTTTAACAACAACTTT
* * * *
24781573 ATCAACAACATCGAGACCATTGTCGCATCACAAATTGACAAAACAAACCTTACATTGTGGCACTG
1 ATCAACAACATCGGGACCACTGTCACATCACAAATCGACAAAACAAACC-TACATTGTGGCACTG
*
24781638 AAATTGCAATAATAAATCAAAAATAACCATCTACAAGTTTAACAACAACTTT
65 AAATTGCAATAATAAATCACAAATAACCATCTACAAGTTTAACAACAACTTT
* * *
24781690 ATCAACAACATTGGGACCACTGTCACATCACAAATCGACAAAACTAACCCTACATTGTGGCATTG
1 ATCAACAACATCGGGACCACTGTCACATCACAAATCGACAAAAC-AAACCTACATTGTGGCACTG
*
24781755 AAATTACAATAATAAATCACAAATAA
65 AAATTGCAATAATAAATCACAAATAA
24781781 TCAACAAACT
Statistics
Matches: 188, Mismatches: 18, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
116 5 0.03
117 179 0.95
118 4 0.02
ACGTcount: A:0.44, C:0.23, G:0.10, T:0.23
Consensus pattern (116 bp):
ATCAACAACATCGGGACCACTGTCACATCACAAATCGACAAAACAAACCTACATTGTGGCACTGA
AATTGCAATAATAAATCACAAATAACCATCTACAAGTTTAACAACAACTTT
Found at i:24782047 original size:17 final size:17
Alignment explanation
Indices: 24782023--24782069 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
24782013 AATGTTATGG
24782023 ATTT-GGGAATTTTACC
1 ATTTGGGGAATTTTACC
* *
24782039 ATTTGGGGAATTTAACG
1 ATTTGGGGAATTTTACC
*
24782056 AGTTGGGG-ATTTTA
1 ATTTGGGGAATTTTA
24782070 GAACTTGTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
16 9 0.35
17 17 0.65
ACGTcount: A:0.26, C:0.06, G:0.28, T:0.40
Consensus pattern (17 bp):
ATTTGGGGAATTTTACC
Found at i:24784455 original size:36 final size:37
Alignment explanation
Indices: 24784408--24784482 Score: 134
Period size: 36 Copynumber: 2.1 Consensus size: 37
24784398 ATATAGATGG
*
24784408 ATACTATTGTAATATCAGTACAT-CCAATTTAATGAA
1 ATACTATTGTAATATCAGTACATCCCAATTAAATGAA
24784444 ATACTATTGTAATATCAGTACATCCCAATTAAATGAA
1 ATACTATTGTAATATCAGTACATCCCAATTAAATGAA
24784481 AT
1 AT
24784483 TATTCAATTA
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
36 23 0.62
37 14 0.38
ACGTcount: A:0.43, C:0.15, G:0.08, T:0.35
Consensus pattern (37 bp):
ATACTATTGTAATATCAGTACATCCCAATTAAATGAA
Found at i:24786424 original size:32 final size:32
Alignment explanation
Indices: 24786383--24786449 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
24786373 TCTAAACAAG
24786383 ATTTGGGAAAACTATTTCCTATGATGTATAAT
1 ATTTGGGAAAACTATTTCCTATGATGTATAAT
24786415 ATTTGGGAAAACTATTTCCTATGATGTATAAT
1 ATTTGGGAAAACTATTTCCTATGATGTATAAT
24786447 ATT
1 ATT
24786450 CTCTTTATTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.34, C:0.09, G:0.15, T:0.42
Consensus pattern (32 bp):
ATTTGGGAAAACTATTTCCTATGATGTATAAT
Found at i:24792216 original size:21 final size:22
Alignment explanation
Indices: 24792192--24792232 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
24792182 CAACACAACC
*
24792192 ATATAAAATTTTAA-AATATAT
1 ATATAAAATATTAACAATATAT
*
24792213 ATATACAATATTAACAATAT
1 ATATAAAATATTAACAATAT
24792233 TTGATAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATAAAATATTAACAATATAT
Found at i:24792754 original size:19 final size:18
Alignment explanation
Indices: 24792717--24792759 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
24792707 TAGGGGTTTA
* *
24792717 TTTAACTAAATAAATTAC
1 TTTAAATAAATAAAGTAC
24792735 TTTAAATAAAGTAAAGTAC
1 TTTAAATAAA-TAAAGTAC
24792754 TTTAAA
1 TTTAAA
24792760 GGGTTTTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 9 0.41
19 13 0.59
ACGTcount: A:0.51, C:0.07, G:0.05, T:0.37
Consensus pattern (18 bp):
TTTAAATAAATAAAGTAC
Found at i:24799560 original size:2 final size:2
Alignment explanation
Indices: 24799549--24799586 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
24799539 CTTTTCTAAC
24799549 AT AT -T AT AT 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 AT AT AT AT AT A
24799587 AAATACTAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24802421 original size:26 final size:24
Alignment explanation
Indices: 24802378--24802468 Score: 85
Period size: 26 Copynumber: 3.5 Consensus size: 24
24802368 CTGTTAAATG
*
24802378 AACACTGACTCAAGGCCTGATAATTA
1 AACACCGACTCAA-GCCTGATAA-TA
*
24802404 AACACCGACTCACAGCCTGCTAGATA
1 AACACCGACTCA-AGCCTGATA-ATA
*
24802430 AATCACCGGCTCAAAGCCT-ACTAATA
1 AA-CACCGACTC-AAGCCTGA-TAATA
24802456 AACACCGACTCAA
1 AACACCGACTCAA
24802469 ATCCTACAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
24 2 0.04
25 8 0.15
26 27 0.49
27 17 0.31
28 1 0.02
ACGTcount: A:0.38, C:0.31, G:0.13, T:0.18
Consensus pattern (24 bp):
AACACCGACTCAAGCCTGATAATA
Found at i:24802467 original size:25 final size:25
Alignment explanation
Indices: 24802378--24802498 Score: 109
Period size: 25 Copynumber: 4.7 Consensus size: 25
24802368 CTGTTAAATG
* *
24802378 AACACTGACTCAAGGCCTGA-TAATTA
1 AACACCGACTCAAAGCCT-ACTAA-TA
* *
24802404 AACACCGACTCACAGCCTGCTAGATA
1 AACACCGACTCAAAGCCTACTA-ATA
*
24802430 AATCACCGGCTCAAAGCCTACTAATA
1 AA-CACCGACTCAAAGCCTACTAATA
* *
24802456 AACACCGACTCAAATCCTACAAATA
1 AACACCGACTCAAAGCCTACTAATA
* * *
24802481 AACATCGGCTTAAAGCCT
1 AACACCGACTCAAAGCCT
24802499 GCTAGGCAAT
Statistics
Matches: 78, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
25 34 0.44
26 26 0.33
27 18 0.23
ACGTcount: A:0.39, C:0.30, G:0.12, T:0.19
Consensus pattern (25 bp):
AACACCGACTCAAAGCCTACTAATA
Found at i:24807762 original size:28 final size:28
Alignment explanation
Indices: 24807696--24808029 Score: 359
Period size: 28 Copynumber: 12.0 Consensus size: 28
24807686 TGCTCTGTAA
* * * *
24807696 CATAGACCGCCATAAAGGCTT-TCATTT
1 CATAGATCGCCACAAAGGCTTCCCTTTT
* *
24807723 CATAAATCGCCATAAAGGCTTCCCTTTT
1 CATAGATCGCCACAAAGGCTTCCCTTTT
* *
24807751 CATAGATTGCCATAAAGGCTTCCCTTTT
1 CATAGATCGCCACAAAGGCTTCCCTTTT
* * * **
24807779 TATAGTTCGCCACAAAGGTTTCTTTTTT
1 CATAGATCGCCACAAAGGCTTCCCTTTT
24807807 CATAGATCGCCACAAAGGCTTCCCTTTT
1 CATAGATCGCCACAAAGGCTTCCCTTTT
** *
24807835 CATAGATCGATACAAAGGCTTCCCTCTT
1 CATAGATCGCCACAAAGGCTTCCCTTTT
* * * *
24807863 -ATTGTTCACCACAAAGGCTTCTCTTTT
1 CATAGATCGCCACAAAGGCTTCCCTTTT
* *
24807890 CATATATCACCACAAAGGCTTCCCTTTT
1 CATAGATCGCCACAAAGGCTTCCCTTTT
* * *
24807918 CATAGATCGCCGCAAAGGCTTTCTTTTT
1 CATAGATCGCCACAAAGGCTTCCCTTTT
* * *
24807946 TATA-ATTCGCCACAAAGACTTCCCTTGT
1 CATAGA-TCGCCACAAAGGCTTCCCTTTT
*
24807974 CATAAATCGCCACAAAGGCTTCCCTTTT
1 CATAGATCGCCACAAAGGCTTCCCTTTT
* *
24808002 TATAGTTCGCCACAAAGGCTTCCCTTTT
1 CATAGATCGCCACAAAGGCTTCCCTTTT
24808030 TCTGACGTGT
Statistics
Matches: 254, Mismatches: 49, Indels: 7
0.82 0.16 0.02
Matches are distributed among these distances:
27 40 0.16
28 213 0.84
29 1 0.00
ACGTcount: A:0.26, C:0.28, G:0.13, T:0.34
Consensus pattern (28 bp):
CATAGATCGCCACAAAGGCTTCCCTTTT
Found at i:24807852 original size:84 final size:84
Alignment explanation
Indices: 24807703--24808030 Score: 426
Period size: 84 Copynumber: 3.9 Consensus size: 84
24807693 TAACATAGAC
* * * * *
24807703 CGCCATAAAGGCTT-TCATTTCATAAATCGCCATAAAGGCTTCCCTTTTCATAGATTGCCATAAA
1 CGCCACAAAGGCTTCTCTTTTCATAAATCGCCACAAAGGCTTCCCTTTTCATAGATCGCCACAAA
24807767 GGCTTCCCTTTTTATAGTT
66 GGCTTCCCTTTTTATAGTT
* * * **
24807786 CGCCACAAAGGTTTCTTTTTTCATAGATCGCCACAAAGGCTTCCCTTTTCATAGATCGATACAAA
1 CGCCACAAAGGCTTCTCTTTTCATAAATCGCCACAAAGGCTTCCCTTTTCATAGATCGCCACAAA
* *
24807851 GGCTTCCC-TCTTATTGTT
66 GGCTTCCCTTTTTATAGTT
* * * *
24807869 CACCACAAAGGCTTCTCTTTTCATATATCACCACAAAGGCTTCCCTTTTCATAGATCGCCGCAAA
1 CGCCACAAAGGCTTCTCTTTTCATAAATCGCCACAAAGGCTTCCCTTTTCATAGATCGCCACAAA
* * *
24807934 GGCTTTCTTTTTTATAATT
66 GGCTTCCCTTTTTATAGTT
* * * * *
24807953 CGCCACAAAGACTTCCCTTGTCATAAATCGCCACAAAGGCTTCCCTTTTTATAGTTCGCCACAAA
1 CGCCACAAAGGCTTCTCTTTTCATAAATCGCCACAAAGGCTTCCCTTTTCATAGATCGCCACAAA
24808018 GGCTTCCCTTTTT
66 GGCTTCCCTTTTT
24808031 CTGACGTGTT
Statistics
Matches: 207, Mismatches: 36, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
83 83 0.40
84 124 0.60
ACGTcount: A:0.25, C:0.27, G:0.13, T:0.34
Consensus pattern (84 bp):
CGCCACAAAGGCTTCTCTTTTCATAAATCGCCACAAAGGCTTCCCTTTTCATAGATCGCCACAAA
GGCTTCCCTTTTTATAGTT
Found at i:24810921 original size:10 final size:10
Alignment explanation
Indices: 24810902--24810948 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
24810892 AAATCTATCG
24810902 AAAA-TAATC
1 AAAATTAATC
24810911 AAAATTAATC
1 AAAATTAATC
*
24810921 AAAATTAATTAT
1 AAAATTAA-T-C
*
24810933 AAAATTAATT
1 AAAATTAATC
24810943 AAAATT
1 AAAATT
24810949 CAACATGTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
9 4 0.12
10 20 0.59
11 2 0.06
12 8 0.24
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (10 bp):
AAAATTAATC
Found at i:24812112 original size:10 final size:11
Alignment explanation
Indices: 24812092--24812127 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
24812082 ATTTTTTTCT
24812092 TTTTCAAAAAA
1 TTTTCAAAAAA
24812103 TTTT-AAAAAA
1 TTTTCAAAAAA
*
24812113 TTTTCAAAATA
1 TTTTCAAAAAA
24812124 TTTT
1 TTTT
24812128 TCAGTTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 10 0.43
11 13 0.57
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (11 bp):
TTTTCAAAAAA
Found at i:24818026 original size:16 final size:17
Alignment explanation
Indices: 24818007--24818038 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
24817997 TTTTTAAATA
24818007 TTTTTATTTTT-CTCTC
1 TTTTTATTTTTACTCTC
24818023 TTTTTATTTTTACTCT
1 TTTTTATTTTTACTCT
24818039 GCCAAGCAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.09, C:0.16, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTTATTTTTACTCTC
Found at i:24818130 original size:13 final size:13
Alignment explanation
Indices: 24818114--24818138 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24818104 TGATTAAAAC
24818114 TTTTGAAAATAAT
1 TTTTGAAAATAAT
24818127 TTTTGAAAATAA
1 TTTTGAAAATAA
24818139 AAATATGTTA
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:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (13 bp):
TTTTGAAAATAAT
Found at i:24820938 original size:252 final size:252
Alignment explanation
Indices: 24820488--24820968 Score: 944
Period size: 252 Copynumber: 1.9 Consensus size: 252
24820478 GTCAAACGTC
*
24820488 AAAACTTTGAAAAGATTGGAAACGATTCCCCTTTTATTAATGCCATATTTTAAAACAATGCTTGG
1 AAAAATTTGAAAAGATTGGAAACGATTCCCCTTTTATTAATGCCATATTTTAAAACAATGCTTGG
*
24820553 ATAGATTTGAACGAATGTGAAAGGGTTTCTCATCCCGAGGCAACAAGATGTCGTATCCTGTAAGT
66 ATAGATTTGAACGAATGTGAAAGGGTTTCTCATCCCGAGGCAACAAGATGCCGTATCCTGTAAGT
24820618 TAAGATGCAACGTTTGGATTCCCGAGCATAAGCTAACCTTTTAAAAATCTTTATTGAAACTTTGT
131 TAAGATGCAACGTTTGGATTCCCGAGCATAAGCTAACCTTTTAAAAATCTTTATTGAAACTTTGT
24820683 GCATTTGAAAACTAAAAAGTTTAGTCGTTTTAGTAATGCTTTGTGCATTTGAAAACT
196 GCATTTGAAAACTAAAAAGTTTAGTCGTTTTAGTAATGCTTTGTGCATTTGAAAACT
24820740 AAAAATTTGAAAAGATTGGAAACGATTCCCCTTTTATTAATGCCATATTTTAAAACAATGCTTGG
1 AAAAATTTGAAAAGATTGGAAACGATTCCCCTTTTATTAATGCCATATTTTAAAACAATGCTTGG
24820805 ATAGATTTGAACGAATGTGAAAGGGTTTCTCATCCCGAGGCAACAAGATGCCGTATCCTGTAAGT
66 ATAGATTTGAACGAATGTGAAAGGGTTTCTCATCCCGAGGCAACAAGATGCCGTATCCTGTAAGT
24820870 TAAGATGCAACGTTTGGATTCCCGAGCATAAGCTAACCTTTTAAAAATCTTTATTGAAACTTTGT
131 TAAGATGCAACGTTTGGATTCCCGAGCATAAGCTAACCTTTTAAAAATCTTTATTGAAACTTTGT
24820935 GCATTTGAAAACTAAAAAGTTTAGTCGTTTTAGT
196 GCATTTGAAAACTAAAAAGTTTAGTCGTTTTAGT
24820969 TCGATGAGAA
Statistics
Matches: 227, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
252 227 1.00
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (252 bp):
AAAAATTTGAAAAGATTGGAAACGATTCCCCTTTTATTAATGCCATATTTTAAAACAATGCTTGG
ATAGATTTGAACGAATGTGAAAGGGTTTCTCATCCCGAGGCAACAAGATGCCGTATCCTGTAAGT
TAAGATGCAACGTTTGGATTCCCGAGCATAAGCTAACCTTTTAAAAATCTTTATTGAAACTTTGT
GCATTTGAAAACTAAAAAGTTTAGTCGTTTTAGTAATGCTTTGTGCATTTGAAAACT
Found at i:24821343 original size:43 final size:43
Alignment explanation
Indices: 24821295--24821386 Score: 166
Period size: 43 Copynumber: 2.1 Consensus size: 43
24821285 ATCGAACTCG
* *
24821295 AAATAATATATAAAACAAATTTAATTTCAAAGAAAGGGTACAT
1 AAATAATATATAAAACAAACTTAATTCCAAAGAAAGGGTACAT
24821338 AAATAATATATAAAACAAACTTAATTCCAAAGAAAGGGTACAT
1 AAATAATATATAAAACAAACTTAATTCCAAAGAAAGGGTACAT
24821381 AAATAA
1 AAATAA
24821387 AACAACATGA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.58, C:0.09, G:0.09, T:0.25
Consensus pattern (43 bp):
AAATAATATATAAAACAAACTTAATTCCAAAGAAAGGGTACAT
Found at i:24821606 original size:25 final size:26
Alignment explanation
Indices: 24821578--24821626 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
24821568 TATAGAAAAA
24821578 TAATAAAAATAATT-AAAAAAATAAG
1 TAATAAAAATAATTCAAAAAAATAAG
***
24821603 TAATATGTATAATTCAAAAAAATA
1 TAATAAAAATAATTCAAAAAAATA
24821627 GTATGTATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 11 0.55
26 9 0.45
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (26 bp):
TAATAAAAATAATTCAAAAAAATAAG
Found at i:24821771 original size:24 final size:24
Alignment explanation
Indices: 24821733--24822032 Score: 171
Period size: 24 Copynumber: 12.8 Consensus size: 24
24821723 TGAATTGGAT
* *
24821733 AATTTACAATAAATAATATATAATA
1 AATTTAAAAT-AATAATATATGATA
* *
24821758 AATTTGAAATAATAATACAT-ATAA
1 AATTTAAAATAATAATATATGAT-A
*
24821782 AATTT-AAA-AAT--TTTGATGAT-
1 AATTTAAAATAATAATAT-ATGATA
* *
24821802 AATTCTAAAATAATCATACATGATA
1 AATT-TAAAATAATAATATATGATA
** * *
24821827 AATCCAAAATAATAGTATATAATA
1 AATTTAAAATAATAATATATGATA
*
24821851 AATTT-AAA-AATATTA-ATGATA
1 AATTTAAAATAATAATATATGATA
* *
24821872 AATTTGAAATAA-ATATACATGATA
1 AATTTAAAATAATA-ATATATGATA
** * *
24821896 AATTTAAAATAATCTTA-ACGATG
1 AATTTAAAATAATAATATATGATA
24821919 AATTTAAAATAATAATAT-TGATA
1 AATTTAAAATAATAATATATGATA
* *
24821942 AA-TTACAAATAATAAAACATGATA
1 AATTTA-AAATAATAATATATGATA
* **
24821966 AATCTAAAATAATAATATACAATA
1 AATTTAAAATAATAATATATGATA
* * * *
24821990 AACTT-AGATAATATTA-ATGATT
1 AATTTAAAATAATAATATATGATA
*
24822012 AATTTAATGATAATAAGTATA
1 AATTTAA-AATAATAA-TATA
24822033 AACATTCAAA
Statistics
Matches: 210, Mismatches: 43, Indels: 43
0.71 0.15 0.15
Matches are distributed among these distances:
20 5 0.02
21 13 0.06
22 28 0.13
23 59 0.28
24 88 0.42
25 16 0.08
26 1 0.00
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (24 bp):
AATTTAAAATAATAATATATGATA
Found at i:24821805 original size:69 final size:67
Alignment explanation
Indices: 24821730--24822018 Score: 208
Period size: 69 Copynumber: 4.1 Consensus size: 67
24821720 AAATGAATTG
* * * *
24821730 GATAATTTACAATAAATAATATATAATAAATTTGAAATAATAATACAT-ATAAAATTTAAAAATT
1 GATAATTTA-AATAAAT-ATACATGATAAATTTAAAATAATAATACATAAT-AAATTTAAAAATA
*
24821794 TTGAT
63 TTAAT
** * *
24821799 GATAATTCTAAA-ATAATCATACATGATAAATCCAAAATAATAGTATATAATAAATTTAAAAATA
1 GATAATT-TAAATA-AAT-ATACATGATAAATTTAAAATAATAATACATAATAAATTTAAAAATA
24821863 TTAAT
63 TTAAT
** ** *
24821868 GATAAATTTGAAATAAATATACATGATAAATTTAAAATAATCTTA-ACGATGAATTTAAAATAAT
1 GAT-AATTT-AAATAAATATACATGATAAATTTAAAATAATAATACATAATAAATTT-AAA-AAT
* *
24821932 AATATT
62 ATTAAT
* * * * * * *
24821938 GATAAATTACAA-ATAATAAAACATGATAAATCTAAAATAATAATATACAATAAACTTAGATAAT
1 GATAATTTA-AATA-AAT-ATACATGATAAATTTAAAATAATAATACATAATAAATTTA-AAAAT
24822002 ATTAAT
62 ATTAAT
24822008 GATTAATTTAA
1 GA-TAATTTAA
24822019 TGATAATAAG
Statistics
Matches: 175, Mismatches: 31, Indels: 27
0.75 0.13 0.12
Matches are distributed among these distances:
68 11 0.06
69 90 0.51
70 58 0.33
71 16 0.09
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (67 bp):
GATAATTTAAATAAATATACATGATAAATTTAAAATAATAATACATAATAAATTTAAAAATATTA
AT
Found at i:24822823 original size:20 final size:20
Alignment explanation
Indices: 24822790--24822852 Score: 83
Period size: 19 Copynumber: 3.1 Consensus size: 20
24822780 TTTGATTTCT
24822790 TTTTTCCTCCCTTTACACTGA
1 TTTTTCC-CCCTTTACACTGA
** *
24822811 TTTTTTTCTCTTTACACTGA
1 TTTTTCCCCCTTTACACTGA
24822831 -TTTTCCCCCTTTACACTGA
1 TTTTTCCCCCTTTACACTGA
24822850 TTT
1 TTT
24822853 CCTCCCTTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
19 16 0.46
20 14 0.40
21 5 0.14
ACGTcount: A:0.14, C:0.29, G:0.05, T:0.52
Consensus pattern (20 bp):
TTTTTCCCCCTTTACACTGA
Found at i:24822842 original size:19 final size:20
Alignment explanation
Indices: 24822791--24822861 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
24822781 TTGATTTCTT
24822791 TTTTCCTCCCTTTACACTGA
1 TTTTCCTCCCTTTACACTGA
** *
24822811 TTTTTTTCTCTTTACACTGA
1 TTTTCCTCCCTTTACACTGA
24822831 TTTTCC-CCCTTTACACTGA
1 TTTTCCTCCCTTTACACTGA
24822850 -TTTCCTCCCTTT
1 TTTTCCTCCCTTT
24822862 TTTATGAATA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
18 5 0.11
19 18 0.41
20 21 0.48
ACGTcount: A:0.13, C:0.32, G:0.04, T:0.51
Consensus pattern (20 bp):
TTTTCCTCCCTTTACACTGA
Found at i:24825125 original size:21 final size:21
Alignment explanation
Indices: 24825099--24825138 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
24825089 TACATTTATG
24825099 GGCATTAAAACAAGCCTACGA
1 GGCATTAAAACAAGCCTACGA
* *
24825120 GGCATTCAAACGAGCCTAC
1 GGCATTAAAACAAGCCTAC
24825139 AATGCCTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.28, G:0.20, T:0.15
Consensus pattern (21 bp):
GGCATTAAAACAAGCCTACGA
Found at i:24825994 original size:38 final size:37
Alignment explanation
Indices: 24825947--24826088 Score: 153
Period size: 38 Copynumber: 3.7 Consensus size: 37
24825937 CACTGGCACG
24825947 AAGCCTGCTAGGCATC-AAGCCTGATAAACTCTGGCATA
1 AAGCCTGCTAGGC-TCAAAGCCTGATAAACTC-GGCATA
* * * *
24825985 AAGCTTGCTACGCATC-AAGCCTGATAAACATCGGAACA
1 AAGCCTGCTAGGC-TCAAAGCCTGATAAAC-TCGGCATA
* * *
24826023 AAGCCTGCTAGGCTCAAAGCCCGATAAGTCTCCGGCATG
1 AAGCCTGCTAGGCTCAAAGCCTGATAA-ACT-CGGCATA
24826062 AAGCCTGCTAGGCTCAAAGCCTGATAA
1 AAGCCTGCTAGGCTCAAAGCCTGATAA
24826089 GTCACTAGCA
Statistics
Matches: 88, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
37 2 0.02
38 53 0.60
39 33 0.38
ACGTcount: A:0.32, C:0.27, G:0.22, T:0.19
Consensus pattern (37 bp):
AAGCCTGCTAGGCTCAAAGCCTGATAAACTCGGCATA
Found at i:24826071 original size:39 final size:39
Alignment explanation
Indices: 24826020--24826206 Score: 169
Period size: 39 Copynumber: 4.7 Consensus size: 39
24826010 AAACATCGGA
* *
24826020 ACAAAGCCTGCTAGGCTCAAAGCCCGATAAGTCTCCGGC
1 ACAAAGCCTGCTAGGCTCAAAGCCCGATAAGTCACCAGC
** * *
24826059 ATGAAGCCTGCTAGGCTCAAAGCCTGATAAGTCACTAGC
1 ACAAAGCCTGCTAGGCTCAAAGCCCGATAAGTCACCAGC
* * * *
24826098 ACAAAGCTTGTTGGGCTCAAAGCCCGATAAGTCACTAGC
1 ACAAAGCCTGCTAGGCTCAAAGCCCGATAAGTCACCAGC
* * * * *
24826137 ACGAGGCCTGCTAGGCTCAAGGCTCGATACAATACACC-GAC
1 ACAAAGCCTGCTAGGCTCAAAGCCCGATA-AGT-CACCAG-C
* * * *
24826178 ATAAAGCCTGCTAGACCCAAGGCCCGATA
1 ACAAAGCCTGCTAGGCTCAAAGCCCGATA
24826207 CAATGCACCG
Statistics
Matches: 118, Mismatches: 27, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
39 88 0.75
40 3 0.03
41 27 0.23
ACGTcount: A:0.30, C:0.29, G:0.23, T:0.17
Consensus pattern (39 bp):
ACAAAGCCTGCTAGGCTCAAAGCCCGATAAGTCACCAGC
Found at i:24826199 original size:41 final size:41
Alignment explanation
Indices: 24826142--24826222 Score: 117
Period size: 41 Copynumber: 2.0 Consensus size: 41
24826132 CTAGCACGAG
* * *
24826142 GCCTGCTAGGCTCAAGGCTCGATACAATACACCGACATAAA
1 GCCTGCTAGACCCAAGGCCCGATACAATACACCGACATAAA
* *
24826183 GCCTGCTAGACCCAAGGCCCGATACAATGCACCGCCATAA
1 GCCTGCTAGACCCAAGGCCCGATACAATACACCGACATAA
24826223 CAACTCAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.32, C:0.33, G:0.20, T:0.15
Consensus pattern (41 bp):
GCCTGCTAGACCCAAGGCCCGATACAATACACCGACATAAA
Found at i:24826845 original size:43 final size:41
Alignment explanation
Indices: 24826792--24827067 Score: 241
Period size: 42 Copynumber: 6.6 Consensus size: 41
24826782 CAAACAAAAA
* *
24826792 CGCCACTAAAGAACATGATCTTTAGCGGCGTTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCG--TTTTTTATAAG
*
24826835 CGCCGCTAAAGAAAATGATCTTTAGCGGCGTTTTTT-TAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTATAAG
* *
24826875 CGCCGCTAAAGAACATGATCTTTAGTGGCGATTTTTATTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTA-TAAG
* * * ** *
24826917 TGCCGCTGAAA-ATCATGTTCTTTAGCGGCGTTTGTGAATATG
1 CGCCGCT-AAAGAACATGATCTTTAGCGGCGTTT-TTTATAAG
* * * * * *
24826959 CGCCGCTAAAGAACATGTTCTTTAACGGCGCTTTGTAAAAAA
1 CGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTATAAG
* * * * * *
24827001 CGTCGCTAGAGATCATGATATTTAGCGGCGCTTTTTTTACAAA
1 CGCCGCTAAAGAACATGATCTTTAGCGGCG--TTTTTTATAAG
**
24827044 CATCGCTAAAGAACATGATCTTTA
1 CGCCGCTAAAGAACATGATCTTTA
24827068 CCGACGCTTT
Statistics
Matches: 191, Mismatches: 35, Indels: 14
0.80 0.15 0.06
Matches are distributed among these distances:
40 37 0.19
41 9 0.05
42 81 0.42
43 64 0.34
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.33
Consensus pattern (41 bp):
CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTATAAG
Found at i:24827076 original size:43 final size:43
Alignment explanation
Indices: 24826962--24827088 Score: 130
Period size: 43 Copynumber: 3.0 Consensus size: 43
24826952 GAATATGCGC
* *
24826962 CGCTAAAGAACATGTTCTTTAACGGCGC-TTTGTAAAAAACGT
1 CGCTAAAGAACATGATCTTTAACGGCGCTTTTGTAAAAAACAT
* * * * * * *
24827004 CGCTAGAGATCATGATATTTAGCGGCGCTTTTTTTACAAACAT
1 CGCTAAAGAACATGATCTTTAACGGCGCTTTTGTAAAAAACAT
* * *
24827047 CGCTAAAGAACATGATCTTTACCGACGCTTTTATACAAAAAC
1 CGCTAAAGAACATGATCTTTAACGGCGCTTTTGTA-AAAAAC
24827089 GCCACTATTT
Statistics
Matches: 66, Mismatches: 17, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
42 23 0.35
43 38 0.58
44 5 0.08
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (43 bp):
CGCTAAAGAACATGATCTTTAACGGCGCTTTTGTAAAAAACAT
Found at i:24827485 original size:21 final size:21
Alignment explanation
Indices: 24827461--24827507 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
24827451 TTCTTTTGAA
*
24827461 CCTCTGCTTCTCTCGCTGCAG
1 CCTCTGCTTCCCTCGCTGCAG
*
24827482 CCTCTGCTTCCCTCGCTGCCG
1 CCTCTGCTTCCCTCGCTGCAG
24827503 CCTCT
1 CCTCT
24827508 ACTTTAAGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.02, C:0.49, G:0.17, T:0.32
Consensus pattern (21 bp):
CCTCTGCTTCCCTCGCTGCAG
Found at i:24833030 original size:16 final size:15
Alignment explanation
Indices: 24833008--24833050 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 15
24832998 GTTGTTCACT
*
24833008 TTTTTATGTAAGTTG
1 TTTTTATGTAAGTTA
24833023 TATTTTATGTAAGTTA
1 T-TTTTATGTAAGTTA
24833039 TTTATTATGTAA
1 TTT-TTATGTAA
24833051 ACTACGTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 3 0.12
16 22 0.88
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTTTATGTAAGTTA
Found at i:24833086 original size:66 final size:66
Alignment explanation
Indices: 24833012--24833208 Score: 245
Period size: 66 Copynumber: 3.0 Consensus size: 66
24833002 TTCACTTTTT
* * *
24833012 TATGTAAGTTGTATTTTATGTAAGTTATTTATTATGTAAACTACGTAAATTGTGTAGAATGTAAG
1 TATGTAAGTTGTATTTTATGTAAGTTATTTATTATGTAAGCTAAGTAAGTTGTGTAGAATGTAAG
24833077 C
66 C
* **
24833078 TATGTAAGTTGTATTTTATGTAAGTTATTTATTATGTAAGCTAAGTAAGTTGAGTATTATGTAAG
1 TATGTAAGTTGTATTTTATGTAAGTTATTTATTATGTAAGCTAAGTAAGTTGTGTAGAATGTAAG
24833143 C
66 C
* * * * * * *
24833144 TATGT-A-TTATATTAGTTATGTAAATTATGTATTATGTATGTTATGTAAGTTCTGTAGAATGTA
1 TATGTAAGTTGTATT--TTATGTAAGTTATTTATTATGTAAGCTAAGTAAGTTGTGTAGAATGTA
24833207 AG
64 AG
24833209 TTATCTTAAT
Statistics
Matches: 113, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
64 6 0.05
65 1 0.01
66 106 0.94
ACGTcount: A:0.32, C:0.03, G:0.19, T:0.46
Consensus pattern (66 bp):
TATGTAAGTTGTATTTTATGTAAGTTATTTATTATGTAAGCTAAGTAAGTTGTGTAGAATGTAAG
C
Found at i:24833097 original size:16 final size:16
Alignment explanation
Indices: 24833078--24833117 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
24833068 GAATGTAAGC
*
24833078 TATGTAAGTTGTATT-T
1 TATGTAAGTTAT-TTAT
24833094 TATGTAAGTTATTTAT
1 TATGTAAGTTATTTAT
24833110 TATGTAAG
1 TATGTAAG
24833118 CTAAGTAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 2 0.09
16 20 0.91
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (16 bp):
TATGTAAGTTATTTAT
Found at i:24833115 original size:41 final size:41
Alignment explanation
Indices: 24833070--24833153 Score: 116
Period size: 41 Copynumber: 2.0 Consensus size: 41
24833060 ATTGTGTAGA
* * * *
24833070 ATGTAAGCTATGTAAGTTGTA-TTTTATGTAAGTTATTTATT
1 ATGTAAGCTAAGTAAGTTG-AGTATTATGTAAGCTATGTATT
24833111 ATGTAAGCTAAGTAAGTTGAGTATTATGTAAGCTATGTATT
1 ATGTAAGCTAAGTAAGTTGAGTATTATGTAAGCTATGTATT
24833152 AT
1 AT
24833154 ATTAGTTATG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
40 1 0.03
41 37 0.97
ACGTcount: A:0.32, C:0.04, G:0.19, T:0.45
Consensus pattern (41 bp):
ATGTAAGCTAAGTAAGTTGAGTATTATGTAAGCTATGTATT
Found at i:24833125 original size:25 final size:25
Alignment explanation
Indices: 24833097--24833166 Score: 74
Period size: 25 Copynumber: 2.8 Consensus size: 25
24833087 TGTATTTTAT
24833097 GTAAGTTATTTATTATGTAAGCTAA
1 GTAAGTTATTTATTATGTAAGCTAA
* *
24833122 GTAAGTTGA-GTATTATGTAAGCTAT
1 GTAAGTT-ATTTATTATGTAAGCTAA
24833147 GT-A-TTATATTAGTTATGTAA
1 GTAAGTTAT-TTA-TTATGTAA
24833167 ATTATGTATT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
22 1 0.03
23 2 0.05
24 3 0.08
25 31 0.82
26 1 0.03
ACGTcount: A:0.34, C:0.03, G:0.19, T:0.44
Consensus pattern (25 bp):
GTAAGTTATTTATTATGTAAGCTAA
Found at i:24833199 original size:25 final size:25
Alignment explanation
Indices: 24833134--24833199 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 25
24833124 AAGTTGAGTA
*
24833134 TTATGTAAGCTATGTATTATATTAG
1 TTATGTAAGTTATGTATTATATTAG
* *
24833159 TTATGTAAATTATGTATTAT-GTATG
1 TTATGTAAGTTATGTATTATATTA-G
*
24833184 TTATGTAAGTTCTGTA
1 TTATGTAAGTTATGTA
24833200 GAATGTAAGT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
24 2 0.06
25 33 0.94
ACGTcount: A:0.30, C:0.03, G:0.17, T:0.50
Consensus pattern (25 bp):
TTATGTAAGTTATGTATTATATTAG
Found at i:24833205 original size:25 final size:25
Alignment explanation
Indices: 24833157--24833212 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
24833147 GTATTATATT
**
24833157 AGTTATGTAAATTATGTATTATGTA
1 AGTTATGTAAATTATGTAGAATGTA
* * *
24833182 TGTTATGTAAGTTCTGTAGAATGTA
1 AGTTATGTAAATTATGTAGAATGTA
24833207 AGTTAT
1 AGTTAT
24833213 CTTAATTTTA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.46
Consensus pattern (25 bp):
AGTTATGTAAATTATGTAGAATGTA
Found at i:24833271 original size:40 final size:40
Alignment explanation
Indices: 24833221--24833297 Score: 145
Period size: 40 Copynumber: 1.9 Consensus size: 40
24833211 ATCTTAATTT
24833221 TATGTAGGTTATGCAAGTTATGTAATGTATCAATTTTATG
1 TATGTAGGTTATGCAAGTTATGTAATGTATCAATTTTATG
*
24833261 TATGTAGGTTATGCAAGTTATGTATTGTATCAATTTT
1 TATGTAGGTTATGCAAGTTATGTAATGTATCAATTTT
24833298 TAAAAATATA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.29, C:0.05, G:0.19, T:0.47
Consensus pattern (40 bp):
TATGTAGGTTATGCAAGTTATGTAATGTATCAATTTTATG
Found at i:24833520 original size:19 final size:19
Alignment explanation
Indices: 24833498--24833551 Score: 74
Period size: 21 Copynumber: 2.8 Consensus size: 19
24833488 TAAAATTTTA
24833498 AAATATATTTAAAATATAT
1 AAATATATTTAAAATATAT
24833517 AAATCATATTTTAAAATATAT
1 AAAT-ATA-TTTAAAATATAT
*
24833538 ATATAT-TTTAAAAT
1 AAATATATTTAAAAT
24833552 TTAAAAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
18 8 0.25
19 4 0.12
20 5 0.16
21 15 0.47
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (19 bp):
AAATATATTTAAAATATAT
Found at i:24833531 original size:21 final size:18
Alignment explanation
Indices: 24833500--24833551 Score: 70
Period size: 18 Copynumber: 2.8 Consensus size: 18
24833490 AAATTTTAAA
24833500 ATATA-TTTAAAATATAT
1 ATATATTTTAAAATATAT
24833517 AAATCATATTTTAAAATATAT
1 --AT-ATATTTTAAAATATAT
24833538 ATATATTTTAAAAT
1 ATATATTTTAAAAT
24833552 TTAAAAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
18 12 0.39
19 4 0.13
20 3 0.10
21 12 0.39
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (18 bp):
ATATATTTTAAAATATAT
Found at i:24834504 original size:27 final size:29
Alignment explanation
Indices: 24834450--24834504 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
24834440 TAATTATCAC
*
24834450 AACAATCAACTTAATAATAATTGATAAAGT
1 AACAATCAACTTAATAATAAAT-ATAAAGT
24834480 AACAATCAACTTAAT-ATAAAT-TAAA
1 AACAATCAACTTAATAATAAATATAAA
24834505 TTAGAAACTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 4 0.17
29 5 0.21
30 15 0.62
ACGTcount: A:0.56, C:0.11, G:0.04, T:0.29
Consensus pattern (29 bp):
AACAATCAACTTAATAATAAATATAAAGT
Found at i:24836314 original size:7 final size:7
Alignment explanation
Indices: 24836294--24836333 Score: 55
Period size: 7 Copynumber: 5.7 Consensus size: 7
24836284 ATTAACTAGA
24836294 AACCCCT
1 AACCCCT
24836301 AAACCCCT
1 -AACCCCT
24836309 AACCCCT
1 AACCCCT
*
24836316 AACCCTT
1 AACCCCT
24836323 AACCCC-
1 AACCCCT
24836329 AACCC
1 AACCC
24836334 TTAAACCATA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 5 0.17
7 18 0.60
8 7 0.23
ACGTcount: A:0.33, C:0.55, G:0.00, T:0.12
Consensus pattern (7 bp):
AACCCCT
Found at i:24836340 original size:14 final size:14
Alignment explanation
Indices: 24836294--24836337 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
24836284 ATTAACTAGA
*
24836294 AACCCCTAAACCCCT
1 AACCCCT-AACCCTT
24836309 AACCCCTAACCCTT
1 AACCCCTAACCCTT
24836323 AACCCC-AACCCTT
1 AACCCCTAACCCTT
24836336 AA
1 AA
24836338 ACCATAATCC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
13 9 0.32
14 12 0.43
15 7 0.25
ACGTcount: A:0.34, C:0.50, G:0.00, T:0.16
Consensus pattern (14 bp):
AACCCCTAACCCTT
Found at i:24836520 original size:8 final size:7
Alignment explanation
Indices: 24836505--24836567 Score: 56
Period size: 7 Copynumber: 8.9 Consensus size: 7
24836495 ATTAACTATA
24836505 AACCCCT
1 AACCCCT
24836512 AAGCCCCT
1 AA-CCCCT
24836520 AACCCC-
1 AACCCCT
* *
24836526 AGCCCTT
1 AACCCCT
*
24836533 AACCCTT
1 AACCCCT
24836540 AACCCCT
1 AACCCCT
*
24836547 AAACCCTT
1 -AACCCCT
*
24836555 AACCCTT
1 AACCCCT
24836562 AACCCC
1 AACCCC
24836568 AATCCTTAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
6 4 0.09
7 30 0.64
8 13 0.28
ACGTcount: A:0.29, C:0.51, G:0.03, T:0.17
Consensus pattern (7 bp):
AACCCCT
Found at i:24836525 original size:15 final size:14
Alignment explanation
Indices: 24836505--24836567 Score: 56
Period size: 15 Copynumber: 4.4 Consensus size: 14
24836495 ATTAACTATA
24836505 AACCCCTAAGCCCCT
1 AACCCCTAA-CCCCT
* *
24836520 AACCCC-AGCCCTT
1 AACCCCTAACCCCT
*
24836533 AACCCTTAACCCCT
1 AACCCCTAACCCCT
* *
24836547 AAACCCTTAACCCTT
1 -AACCCCTAACCCCT
24836562 AACCCC
1 AACCCC
24836568 AATCCTTAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
13 9 0.23
14 11 0.28
15 19 0.49
ACGTcount: A:0.29, C:0.51, G:0.03, T:0.17
Consensus pattern (14 bp):
AACCCCTAACCCCT
Found at i:24836538 original size:7 final size:7
Alignment explanation
Indices: 24836528--24836566 Score: 60
Period size: 7 Copynumber: 5.4 Consensus size: 7
24836518 CTAACCCCAG
24836528 CCCTTAA
1 CCCTTAA
24836535 CCCTTAA
1 CCCTTAA
*
24836542 CCCCTAAA
1 -CCCTTAA
24836550 CCCTTAA
1 CCCTTAA
24836557 CCCTTAA
1 CCCTTAA
24836564 CCC
1 CCC
24836567 CAATCCTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 23 0.79
8 6 0.21
ACGTcount: A:0.28, C:0.49, G:0.00, T:0.23
Consensus pattern (7 bp):
CCCTTAA
Found at i:24837471 original size:114 final size:114
Alignment explanation
Indices: 24837219--24837571 Score: 333
Period size: 114 Copynumber: 3.1 Consensus size: 114
24837209 TCCTATATTT
* * * * *
24837219 TGCGGCGTTTTT-AGACAAGCGCCACTAAAGTCTCTAAAACCTAAATTAAAAATGACATCGTTTT
1 TGCGGCGTTTTTCAGAAAAGCGCCACTAAAGTCTCCAAAACCTAAATGAAAAATGGCAACGTTTT
* * * * * **
24837283 CTTAACAGTTTTGCAGCACTTGTGATAAAGCACCACTAAAGCTTCGCTAA
66 CTTAACAGTTTTGCGGCGCTTATGATAAAGCGCCGCTAATTCTT-GCTAA
* ** * **
24837333 TGCGGCG-TTTTCTGAAAATTGCCACTAACA-TCTCGAAAAGATAAATGAAAAATGGCAACGTTT
1 TGCGGCGTTTTTCAGAAAAGCGCCACTAA-AGTCTCCAAAACCTAAATGAAAAATGGCAACGTTT
24837396 TCTTAACAGTTTTGCGGCGCTTATGATAAAGCGCCGCTAATTCTTGACT-A
65 TCTTAACAGTTTTGCGGCGCTTATGATAAAGCGCCGCTAATTCTTG-CTAA
* * * * *
24837446 TAGCGGCGTTTTTCAG-TAAGCGCCACTAAAGTCCCCAAAACCTAAACTG-AAAACGGCAGCATT
1 T-GCGGCGTTTTTCAGAAAAGCGCCACTAAAGTCTCCAAAACCTAAA-TGAAAAATGGCAACGTT
* * * *
24837509 TTCTTAACAGTTTTTGCGGCGTTTATGACCAAA-CGCCGGTAATTCTTGCATAT
64 TTCTTAACAG-TTTTGCGGCGCTTATGA-TAAAGCGCCGCTAATTCTTGC-TAA
*
24837562 TGCGGTGTTT
1 TGCGGCGTTT
24837572 CTAAGAAAGG
Statistics
Matches: 195, Mismatches: 33, Indels: 21
0.78 0.13 0.08
Matches are distributed among these distances:
113 8 0.04
114 135 0.69
115 48 0.25
116 4 0.02
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.30
Consensus pattern (114 bp):
TGCGGCGTTTTTCAGAAAAGCGCCACTAAAGTCTCCAAAACCTAAATGAAAAATGGCAACGTTTT
CTTAACAGTTTTGCGGCGCTTATGATAAAGCGCCGCTAATTCTTGCTAA
Found at i:24838428 original size:22 final size:22
Alignment explanation
Indices: 24838403--24838469 Score: 98
Period size: 26 Copynumber: 2.9 Consensus size: 22
24838393 CATAATTAAC
24838403 TATTTTATGCAATTAACACCCT
1 TATTTTATGCAATTAACACCCT
24838425 TATTTTTATGTTGCAATTAACACCCT
1 TA-TTTTA---TGCAATTAACACCCT
24838451 TATTTTATGCAATTAACAC
1 TATTTTATGCAATTAACAC
24838470 TCAATTATCA
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
22 14 0.34
23 5 0.12
25 5 0.12
26 17 0.41
ACGTcount: A:0.31, C:0.19, G:0.06, T:0.43
Consensus pattern (22 bp):
TATTTTATGCAATTAACACCCT
Found at i:24847723 original size:17 final size:19
Alignment explanation
Indices: 24847677--24847712 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
24847667 ATATATAAAA
24847677 AATC-AGAAAAATATATAT
1 AATCTAGAAAAATATATAT
*
24847695 TATCTAGAAAAATATATA
1 AATCTAGAAAAATATATA
24847713 AATTATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 3 0.19
19 13 0.81
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.31
Consensus pattern (19 bp):
AATCTAGAAAAATATATAT
Found at i:24847829 original size:27 final size:30
Alignment explanation
Indices: 24847776--24847836 Score: 83
Period size: 27 Copynumber: 2.1 Consensus size: 30
24847766 AAATTTGTTG
24847776 AAATTTATAATATTATTAAAAAATGTAAAA
1 AAATTTATAATATTATTAAAAAATGTAAAA
**
24847806 AAATTTA-AA-ATTA-TAAAAGTTGTAAAA
1 AAATTTATAATATTATTAAAAAATGTAAAA
24847833 AAAT
1 AAAT
24847837 ATTTTAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 16 0.55
28 4 0.14
29 2 0.07
30 7 0.24
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (30 bp):
AAATTTATAATATTATTAAAAAATGTAAAA
Found at i:24848201 original size:31 final size:32
Alignment explanation
Indices: 24848143--24848204 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 32
24848133 ACCACTATTG
* *
24848143 GTCAATATTCGATCAACGCTTGGTCAACAACA
1 GTCAATATTCGATCAACGCTCGATCAACAACA
* *
24848175 GTCAATATT-GATCAATGGTCGATCAACAAC
1 GTCAATATTCGATCAACGCTCGATCAACAAC
24848205 CGATCAAAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 17 0.65
32 9 0.35
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (32 bp):
GTCAATATTCGATCAACGCTCGATCAACAACA
Found at i:24852075 original size:12 final size:12
Alignment explanation
Indices: 24852058--24852110 Score: 52
Period size: 12 Copynumber: 4.2 Consensus size: 12
24852048 ATCAACTTGC
24852058 CCTTGTGAGTAA
1 CCTTGTGAGTAA
***
24852070 CCTTGTTTTTTAA
1 CCTTG-TGAGTAA
24852083 CAACTTGTGAGTAA
1 C--CTTGTGAGTAA
24852097 CCTTGTGAGTAA
1 CCTTGTGAGTAA
24852109 CC
1 CC
24852111 ATTCAAACCA
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
12 18 0.56
13 5 0.16
14 5 0.16
15 4 0.12
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.38
Consensus pattern (12 bp):
CCTTGTGAGTAA
Found at i:24853530 original size:29 final size:29
Alignment explanation
Indices: 24853488--24853549 Score: 124
Period size: 29 Copynumber: 2.1 Consensus size: 29
24853478 TGGATAGTAT
24853488 GTTCGATACGTGCTCGCAATAATCCGATA
1 GTTCGATACGTGCTCGCAATAATCCGATA
24853517 GTTCGATACGTGCTCGCAATAATCCGATA
1 GTTCGATACGTGCTCGCAATAATCCGATA
24853546 GTTC
1 GTTC
24853550 CCAAGTAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (29 bp):
GTTCGATACGTGCTCGCAATAATCCGATA
Found at i:24858091 original size:45 final size:45
Alignment explanation
Indices: 24858040--24858146 Score: 162
Period size: 45 Copynumber: 2.4 Consensus size: 45
24858030 TGTTCAATTA
24858040 GTTTGACTCTCTTCTTGA-TTGGTTAGTTGGGAGTCAACCAGATTG
1 GTTTGACTCTCTTCTTGACTT-GTTAGTTGGGAGTCAACCAGATTG
*
24858085 GTTTGACTCTCTTCTTGACTTGTTAGTTGGGAGTTAACCAGATTG
1 GTTTGACTCTCTTCTTGACTTGTTAGTTGGGAGTCAACCAGATTG
* * *
24858130 ATTTGGCTCTATTCTTG
1 GTTTGACTCTCTTCTTG
24858147 GCTGGTCTAC
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
45 55 0.96
46 2 0.04
ACGTcount: A:0.17, C:0.16, G:0.24, T:0.43
Consensus pattern (45 bp):
GTTTGACTCTCTTCTTGACTTGTTAGTTGGGAGTCAACCAGATTG
Found at i:24875255 original size:14 final size:14
Alignment explanation
Indices: 24875236--24875264 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
24875226 GAGATAATAG
24875236 ACATGATTTAGTAA
1 ACATGATTTAGTAA
24875250 ACATGATTTAGTAA
1 ACATGATTTAGTAA
24875264 A
1 A
24875265 GTATGCAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.34
Consensus pattern (14 bp):
ACATGATTTAGTAA
Found at i:24876774 original size:16 final size:17
Alignment explanation
Indices: 24876749--24876781 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
24876739 TTCATCACAC
*
24876749 TTAGGTTAA-TTTGCAT
1 TTAGGATAATTTTGCAT
24876765 TTAGGATAATTTTGCAT
1 TTAGGATAATTTTGCAT
24876782 CTAGTTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.27, C:0.06, G:0.18, T:0.48
Consensus pattern (17 bp):
TTAGGATAATTTTGCAT
Found at i:24878469 original size:39 final size:40
Alignment explanation
Indices: 24878402--24878544 Score: 150
Period size: 39 Copynumber: 3.6 Consensus size: 40
24878392 ATTGTATGAT
*
24878402 TGCACAT-CGTGCCCCTGTTTGTACTTCGGTACCCCTGAA
1 TGCACATACATGCCCCTGTTTGTACTTCGGTACCCCTGAA
* * * *
24878441 TGTATATACATGCCCC-GTTTGTATTTCGGTACCCCTGAT
1 TGCACATACATGCCCCTGTTTGTACTTCGGTACCCCTGAA
* * *
24878480 TGCACATACGTGCCCCTGTTTGTAC-TCTGGTACCCTTGAT
1 TGCACATACATGCCCCTGTTTGTACTTC-GGTACCCCTGAA
* * *
24878520 TGCAC-TACGTGCTCCTGTTTATACT
1 TGCACATACATGCCCCTGTTTGTACT
24878545 ATATTAACTT
Statistics
Matches: 88, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
39 58 0.66
40 30 0.34
ACGTcount: A:0.16, C:0.29, G:0.19, T:0.36
Consensus pattern (40 bp):
TGCACATACATGCCCCTGTTTGTACTTCGGTACCCCTGAA
Found at i:24879543 original size:73 final size:73
Alignment explanation
Indices: 24879424--24879566 Score: 268
Period size: 73 Copynumber: 2.0 Consensus size: 73
24879414 ACGATTTGCT
*
24879424 TTTAAGTTATTTTCAAGGCCTCAAAGGCTAGTTTTAGGGATAATATGCATGTATATGAATGGTTT
1 TTTAAGTTATTTTCAAGGCCTCAAAGGCTAGTTTTAGGGACAATATGCATGTATATGAATGGTTT
24879489 ATGATATA
66 ATGATATA
*
24879497 TTTAAGTTATTTTCAAGGCCTCAAAGGCTCGTTTTAGGGACAATATGCATGTATATGAATGGTTT
1 TTTAAGTTATTTTCAAGGCCTCAAAGGCTAGTTTTAGGGACAATATGCATGTATATGAATGGTTT
24879562 ATGAT
66 ATGAT
24879567 TGTAAGGTGT
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 68 1.00
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (73 bp):
TTTAAGTTATTTTCAAGGCCTCAAAGGCTAGTTTTAGGGACAATATGCATGTATATGAATGGTTT
ATGATATA
Found at i:24893538 original size:23 final size:24
Alignment explanation
Indices: 24893490--24893538 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
24893480 TGACCCACAA
*
24893490 CTCGTGTGAGCAGGCCTATTTCAAAG
1 CTCGTGTGAGCA-G-CTATTTAAAAG
24893516 CTCGTGTGAGCA-CTATTTAAAAG
1 CTCGTGTGAGCAGCTATTTAAAAG
24893539 GAAAGGTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 10 0.45
26 12 0.55
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (24 bp):
CTCGTGTGAGCAGCTATTTAAAAG
Found at i:24898642 original size:19 final size:19
Alignment explanation
Indices: 24898609--24898648 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
24898599 AAAATATAAT
*
24898609 ATTAATTTTAATTTATTTG
1 ATTAATTTTAATTTACTTG
24898628 ATTAA-TTTAATTTTACTTG
1 ATTAATTTTAA-TTTACTTG
24898647 AT
1 AT
24898649 CAAAATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.60
Consensus pattern (19 bp):
ATTAATTTTAATTTACTTG
Found at i:24904999 original size:31 final size:31
Alignment explanation
Indices: 24904956--24905025 Score: 113
Period size: 31 Copynumber: 2.3 Consensus size: 31
24904946 CCGTGTCTAA
*
24904956 GGCCATGTGGACATTCGAAATAGGGATACAC
1 GGCCGTGTGGACATTCGAAATAGGGATACAC
*
24904987 GGCCGTGTGGACATTCGAAATAGGTATACAC
1 GGCCGTGTGGACATTCGAAATAGGGATACAC
*
24905018 GACCGTGT
1 GGCCGTGT
24905026 CTAAACATGT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.29, C:0.20, G:0.30, T:0.21
Consensus pattern (31 bp):
GGCCGTGTGGACATTCGAAATAGGGATACAC
Found at i:24907251 original size:26 final size:26
Alignment explanation
Indices: 24907215--24907274 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 26
24907205 AAAGCTCTGG
24907215 AGAGCCATTAATCAGGAAGCTCAC-A
1 AGAGCCATTAATCAGGAAGCTCACGA
*
24907240 ATGAGCCTTTAATCAGGAAGCTCACGA
1 A-GAGCCATTAATCAGGAAGCTCACGA
24907267 AGAGCCAT
1 AGAGCCAT
24907275 ATATCGGGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
25 1 0.03
26 28 0.90
27 2 0.06
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.18
Consensus pattern (26 bp):
AGAGCCATTAATCAGGAAGCTCACGA
Found at i:24910374 original size:34 final size:34
Alignment explanation
Indices: 24910331--24910398 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
24910321 TTTCACACTT
24910331 GTGAACTTAATCAATATAAATCTTATGAATTCCA
1 GTGAACTTAATCAATATAAATCTTATGAATTCCA
24910365 GTGAACTTAATCAATATAAATCTTATGAATTCCA
1 GTGAACTTAATCAATATAAATCTTATGAATTCCA
24910399 TTGTATAAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.41, C:0.15, G:0.09, T:0.35
Consensus pattern (34 bp):
GTGAACTTAATCAATATAAATCTTATGAATTCCA
Found at i:24917025 original size:17 final size:18
Alignment explanation
Indices: 24916996--24917030 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
24916986 TTCTCCTAAA
*
24916996 TTTCAATTTTATTTAATT
1 TTTCAATTTTATTAAATT
24917014 TTTCAA-TTTATTAAATT
1 TTTCAATTTTATTAAATT
24917031 ATTAATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTCAATTTTATTAAATT
Found at i:24919256 original size:13 final size:13
Alignment explanation
Indices: 24919240--24919264 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24919230 AAAATACAAG
24919240 AAAAAAAGAGAGA
1 AAAAAAAGAGAGA
24919253 AAAAAAAGAGAG
1 AAAAAAAGAGAG
24919265 CATATGTACT
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:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (13 bp):
AAAAAAAGAGAGA
Found at i:24922572 original size:3 final size:3
Alignment explanation
Indices: 24922564--24922629 Score: 114
Period size: 3 Copynumber: 22.0 Consensus size: 3
24922554 TGTTATTAAG
*
24922564 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
24922612 TTA TCA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA
24922630 CTATATATAC
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:24925463 original size:20 final size:19
Alignment explanation
Indices: 24925440--24925496 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
24925430 GGGAGCACCG
24925440 ATGTGCTAAGCAGGGCACAA
1 ATGTGC-AAGCAGGGCACAA
* *
24925460 ATGTGCATAGAAGAGCACCAA
1 ATGTGCA-AGCAGGGCA-CAA
24925481 A-GTGCAAGCAGGGCAC
1 ATGTGCAAGCAGGGCAC
24925497 CAGAGTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
18 1 0.03
19 8 0.26
20 18 0.58
21 4 0.13
ACGTcount: A:0.37, C:0.21, G:0.30, T:0.12
Consensus pattern (19 bp):
ATGTGCAAGCAGGGCACAA
Found at i:24925498 original size:19 final size:19
Alignment explanation
Indices: 24925442--24925505 Score: 67
Period size: 19 Copynumber: 3.3 Consensus size: 19
24925432 GAGCACCGAT
24925442 GTGCTAAGCAGGGCA-CAAA
1 GTGC-AAGCAGGGCACCAAA
* *
24925461 TGTGCATAGAAGAGCACCAAA
1 -GTGCA-AGCAGGGCACCAAA
*
24925482 GTGCAAGCAGGGCACCAGA
1 GTGCAAGCAGGGCACCAAA
24925501 GTGCA
1 GTGCA
24925506 TAACAAGGAA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
19 17 0.46
20 16 0.43
21 4 0.11
ACGTcount: A:0.36, C:0.22, G:0.31, T:0.11
Consensus pattern (19 bp):
GTGCAAGCAGGGCACCAAA
Found at i:24925563 original size:19 final size:19
Alignment explanation
Indices: 24925501--24925565 Score: 78
Period size: 20 Copynumber: 3.3 Consensus size: 19
24925491 GGGCACCAGA
*
24925501 GTGCATAACAAGGAACATAT
1 GTGCA-AACAAGGCACATAT
*
24925521 GTGCAATCAGAGGCATCATA-
1 GTGCAAACA-AGGCA-CATAT
24925541 GTGCAAACAAGGCACATAT
1 GTGCAAACAAGGCACATAT
24925560 GTGCAA
1 GTGCAA
24925566 TCAAAAGTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
18 4 0.10
19 14 0.36
20 17 0.44
21 4 0.10
ACGTcount: A:0.40, C:0.18, G:0.23, T:0.18
Consensus pattern (19 bp):
GTGCAAACAAGGCACATAT
Found at i:24925566 original size:39 final size:39
Alignment explanation
Indices: 24925482--24925568 Score: 122
Period size: 39 Copynumber: 2.2 Consensus size: 39
24925472 GAGCACCAAA
*
24925482 GTGCAAGCAGGGCACCAGAGTGCATAACAAGGAACATAT
1 GTGCAATCAGGGCACCAGAGTGCATAACAAGGAACATAT
* * *
24925521 GTGCAATCAGAGGCATCATAGTGCA-AACAAGGCACATAT
1 GTGCAATCAG-GGCACCAGAGTGCATAACAAGGAACATAT
24925560 GTGCAATCA
1 GTGCAATCA
24925569 AAAGTAATGT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
39 31 0.72
40 12 0.28
ACGTcount: A:0.38, C:0.21, G:0.25, T:0.16
Consensus pattern (39 bp):
GTGCAATCAGGGCACCAGAGTGCATAACAAGGAACATAT
Found at i:24929386 original size:15 final size:16
Alignment explanation
Indices: 24929341--24929396 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
24929331 AATAAGATTT
* *
24929341 AATATTAAATTTAATCT
1 AATATTATA-TTAATCA
*
24929358 AATATTTATCTTAA-CA
1 AATA-TTATATTAATCA
*
24929374 AATATTATATTAATTA
1 AATATTATATTAATCA
24929390 AATATTA
1 AATATTA
24929397 AAGTGATTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
15 8 0.25
16 13 0.41
17 8 0.25
18 3 0.09
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.46
Consensus pattern (16 bp):
AATATTATATTAATCA
Found at i:24937832 original size:24 final size:24
Alignment explanation
Indices: 24937800--24937846 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
24937790 TAGTCGTTAG
24937800 GTGTACAAGCCAACTCATCAAACT
1 GTGTACAAGCCAACTCATCAAACT
24937824 GTGTACAAGCCAACTCATCAAAC
1 GTGTACAAGCCAACTCATCAAAC
24937847 ACCCTCTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.30, G:0.13, T:0.19
Consensus pattern (24 bp):
GTGTACAAGCCAACTCATCAAACT
Found at i:24939701 original size:19 final size:20
Alignment explanation
Indices: 24939677--24939718 Score: 77
Period size: 19 Copynumber: 2.1 Consensus size: 20
24939667 GTATTAAGGA
24939677 GCACCAAAGTGCA-AACAGG
1 GCACCAAAGTGCATAACAGG
24939696 GCACCAAAGTGCATAACAGG
1 GCACCAAAGTGCATAACAGG
24939716 GCA
1 GCA
24939719 TAGATTAGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.40, C:0.26, G:0.26, T:0.07
Consensus pattern (20 bp):
GCACCAAAGTGCATAACAGG
Found at i:24941725 original size:10 final size:10
Alignment explanation
Indices: 24941712--24941762 Score: 54
Period size: 10 Copynumber: 5.4 Consensus size: 10
24941702 TTTATACATA
*
24941712 TTTAATTAAT
1 TTTAATTATT
24941722 TTT-A-TATT
1 TTTAATTATT
**
24941730 TTTAACAATT
1 TTTAATTATT
24941740 TTT-ATTATT
1 TTTAATTATT
24941749 TTTAATTATT
1 TTTAATTATT
24941759 TTTA
1 TTTA
24941763 TAAATTTCCT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
8 6 0.18
9 9 0.26
10 19 0.56
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (10 bp):
TTTAATTATT
Found at i:24941750 original size:19 final size:19
Alignment explanation
Indices: 24941721--24941763 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
24941711 ATTTAATTAA
24941721 TTTTA-TATTTTTAACAAT
1 TTTTATTATTTTTAACAAT
**
24941739 TTTTATTATTTTTAATTAT
1 TTTTATTATTTTTAACAAT
24941758 TTTTAT
1 TTTTAT
24941764 AAATTTCCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 5 0.23
19 17 0.77
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTTATTATTTTTAACAAT
Found at i:24946860 original size:16 final size:16
Alignment explanation
Indices: 24946841--24946883 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
24946831 ATAGCTCTTA
24946841 TTCAAGACAT-ATGTTG
1 TTCAAGA-ATAATGTTG
24946857 TTCAAGAATAGATGTTG
1 TTCAAGAATA-ATGTTG
24946874 TTC-AGAATAA
1 TTCAAGAATAA
24946884 CCTCTACCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 3 0.12
16 13 0.52
17 9 0.36
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (16 bp):
TTCAAGAATAATGTTG
Found at i:24946873 original size:17 final size:16
Alignment explanation
Indices: 24946851--24946882 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
24946841 TTCAAGACAT
24946851 ATGTTGTTCAAGAATAG
1 ATGTTGTTC-AGAATAG
24946868 ATGTTGTTCAGAATA
1 ATGTTGTTCAGAATA
24946883 ACCTCTACCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.34, C:0.06, G:0.22, T:0.38
Consensus pattern (16 bp):
ATGTTGTTCAGAATAG
Found at i:24950532 original size:67 final size:65
Alignment explanation
Indices: 24950417--24950548 Score: 210
Period size: 67 Copynumber: 2.0 Consensus size: 65
24950407 TTAGAAACTC
* *
24950417 AATCAAGAAAAATACTAAACTGTAATTATGACAAAAAGTCATATAAATCTTACACTCACATTTTC
1 AATCAAGAAAAATACTAAACTGTAATTATGACAAAAAGCCATACAAATCTTACA--CACATTTTC
24950482 TT
64 TT
* *
24950484 AATCAAGAAAAATACTAAACTGTAATTTTGGCAAAAAGCCATACAAATCTTACACACATTTTCTT
1 AATCAAGAAAAATACTAAACTGTAATTATGACAAAAAGCCATACAAATCTTACACACATTTTCTT
24950549 TCTGCAAGCA
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
65 11 0.18
67 50 0.82
ACGTcount: A:0.45, C:0.17, G:0.07, T:0.30
Consensus pattern (65 bp):
AATCAAGAAAAATACTAAACTGTAATTATGACAAAAAGCCATACAAATCTTACACACATTTTCTT
Found at i:24953440 original size:22 final size:22
Alignment explanation
Indices: 24953378--24953446 Score: 111
Period size: 22 Copynumber: 3.1 Consensus size: 22
24953368 ATTGTTCAAA
* **
24953378 CATGAGAGCTTAGTACGTGAAA
1 CATGAGAGCTTAGTACGTTAGC
24953400 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
24953422 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
24953444 CAT
1 CAT
24953447 TTTGGACCCT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (22 bp):
CATGAGAGCTTAGTACGTTAGC
Found at i:24955216 original size:20 final size:19
Alignment explanation
Indices: 24955193--24955231 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
24955183 GAAGAAATAA
*
24955193 AAATGAGAGATGAGATGATG
1 AAATGAGAGAAGAGA-GATG
24955213 AAATGAGAGAAGAGAGATG
1 AAATGAGAGAAGAGAGATG
24955232 CTTGAATGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.49, C:0.00, G:0.36, T:0.15
Consensus pattern (19 bp):
AAATGAGAGAAGAGAGATG
Found at i:24956535 original size:50 final size:50
Alignment explanation
Indices: 24956480--24956867 Score: 442
Period size: 51 Copynumber: 7.7 Consensus size: 50
24956470 TCATTCGATA
*
24956480 CACGTAGTAGCCTTCACATAGTCCTACACACGTGATCAAGTTTTACGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTT
24956530 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTT
*
24956580 CACGTAGTAACCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTT
* * * *
24956630 CACATAGTAGCCTTCACATAGTACTACATACGTGACCAAAGCTTTT-CGGTA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAG-TTTTACGGTT
* * * * *
24956681 CACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCG-TTTATCGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCA-AGTTTTA-CGGTT
* * * * *
24956732 CACGTAGTAGCCTTCACACAGTACTACACACGTGACTAAAACTTCT-CGGTA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGA-T-CAAGTTTTACGGTT
* * * * * * * *
24956783 CACATTGTAGCCTTCACTTAGTACTACACATGTGA-CCATTATTTATCGATA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGT-TTTA-CGGTT
* *
24956834 CACGTAGTAGCCTTCATACAGTACTACACACGTG
1 CACGTAGTAGCCTTCACATAGTACTACACACGTG
24956868 TTCATCGATA
Statistics
Matches: 289, Mismatches: 38, Indels: 21
0.83 0.11 0.06
Matches are distributed among these distances:
48 2 0.01
49 5 0.02
50 132 0.46
51 143 0.49
52 4 0.01
53 3 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (50 bp):
CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTT
Found at i:24959820 original size:22 final size:22
Alignment explanation
Indices: 24959795--24959839 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
24959785 AGGTAAAAAC
*
24959795 CATGTAGAAAGAGACACACAGT
1 CATGTAGAAAGAGACAAACAGT
* * *
24959817 CATGTTGGAGGAGACAAACAGT
1 CATGTAGAAAGAGACAAACAGT
24959839 C
1 C
24959840 GTGTTCTAAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.18, G:0.27, T:0.16
Consensus pattern (22 bp):
CATGTAGAAAGAGACAAACAGT
Found at i:24963879 original size:18 final size:18
Alignment explanation
Indices: 24963856--24963912 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
24963846 ATAGTTCACT
24963856 AGAACTACGAGCTCACCA
1 AGAACTACGAGCTCACCA
**
24963874 AGAACTATAAGCTCACCA
1 AGAACTACGAGCTCACCA
* *
24963892 A-AATGTACGAGCTCACAA
1 AGAA-CTACGAGCTCACCA
24963910 AGA
1 AGA
24963913 TTGTGAGCTC
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
17 2 0.06
18 28 0.90
19 1 0.03
ACGTcount: A:0.44, C:0.26, G:0.16, T:0.14
Consensus pattern (18 bp):
AGAACTACGAGCTCACCA
Found at i:24968395 original size:29 final size:29
Alignment explanation
Indices: 24968355--24968420 Score: 125
Period size: 29 Copynumber: 2.3 Consensus size: 29
24968345 TAGCCATATG
24968355 CTCAC-AATATCATAAATAATGGTGTGTA
1 CTCACAAATATCATAAATAATGGTGTGTA
24968383 CTCACAAATATCATAAATAATGGTGTGTA
1 CTCACAAATATCATAAATAATGGTGTGTA
24968412 CTCACAAAT
1 CTCACAAAT
24968421 CCTATGGCAT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 5 0.14
29 32 0.86
ACGTcount: A:0.41, C:0.17, G:0.12, T:0.30
Consensus pattern (29 bp):
CTCACAAATATCATAAATAATGGTGTGTA
Found at i:24970190 original size:12 final size:12
Alignment explanation
Indices: 24970173--24970205 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
24970163 GTCACTTTTG
24970173 AAGAAGCTGCTC
1 AAGAAGCTGCTC
24970185 AAGAAGCTGCTC
1 AAGAAGCTGCTC
24970197 AAGAAGCTG
1 AAGAAGCTG
24970206 AATGGCGAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.36, C:0.21, G:0.27, T:0.15
Consensus pattern (12 bp):
AAGAAGCTGCTC
Found at i:24971751 original size:17 final size:17
Alignment explanation
Indices: 24971729--24971822 Score: 59
Period size: 17 Copynumber: 5.5 Consensus size: 17
24971719 AACTGCGAGC
24971729 TGCGAGCTCACCAAATG
1 TGCGAGCTCACCAAATG
* * **
24971746 TGCGAGTTCACCTAACC
1 TGCGAGCTCACCAAATG
* * *
24971763 TGCAAGTTCACCAAATA
1 TGCGAGCTCACCAAATG
* *
24971780 TGCAAGCTCTACAAAATAG
1 TGCGAGCTC-ACCAAAT-G
24971799 T--GAGCTCACCAAGAT-
1 TGCGAGCTCACCAA-ATG
24971814 TGCGAGCTC
1 TGCGAGCTC
24971823 GCCTACTAAC
Statistics
Matches: 59, Mismatches: 13, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
15 1 0.02
16 4 0.07
17 47 0.80
18 6 0.10
19 1 0.02
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (17 bp):
TGCGAGCTCACCAAATG
Found at i:24971858 original size:18 final size:19
Alignment explanation
Indices: 24971835--24971896 Score: 69
Period size: 18 Copynumber: 3.5 Consensus size: 19
24971825 CTACTAACAG
24971835 CGAGCTCACTAAGAA-CTA
1 CGAGCTCACTAAGAATCTA
* *
24971853 CGAGCTCACCAA-AATGTA
1 CGAGCTCACTAAGAATCTA
24971871 CGAGCTCACTAAG-ATC-A
1 CGAGCTCACTAAGAATCTA
*
24971888 TGAGCTCAC
1 CGAGCTCAC
24971897 CAACACTACA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
17 11 0.30
18 26 0.70
ACGTcount: A:0.35, C:0.29, G:0.18, T:0.18
Consensus pattern (19 bp):
CGAGCTCACTAAGAATCTA
Found at i:24971927 original size:34 final size:35
Alignment explanation
Indices: 24971854--24971931 Score: 88
Period size: 34 Copynumber: 2.3 Consensus size: 35
24971844 TAAGAACTAC
* * *
24971854 GAGCTCACCAAAATGTACGAGCTCACTAAGATCAT
1 GAGCTCACCAAAATCTACAAGCTCACCAAGATCAT
* *
24971889 GAGCTCACCAACA-CTACAAGCTCACCAAGCATGA-
1 GAGCTCACCAAAATCTACAAGCTCACCAAG-ATCAT
24971923 GAGCTCACC
1 GAGCTCACC
24971932 TGCAAGCTCT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
34 22 0.59
35 15 0.41
ACGTcount: A:0.36, C:0.32, G:0.17, T:0.15
Consensus pattern (35 bp):
GAGCTCACCAAAATCTACAAGCTCACCAAGATCAT
Found at i:24972090 original size:3 final size:3
Alignment explanation
Indices: 24972082--24972131 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
24972072 AGCCAAGTTG
24972082 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
24972130 TA
1 TA
24972132 GCTTATTTAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:24981608 original size:13 final size:13
Alignment explanation
Indices: 24981573--24981610 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
24981563 AGTTCTTTAT
*
24981573 TGCTTTTGAAAAG
1 TGCTTTTGAGAAG
24981586 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
24981599 TGCTTTTGAGAA
1 TGCTTTTGAGAA
24981611 ATTTGAATGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.39
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:24982136 original size:8 final size:8
Alignment explanation
Indices: 24982123--24982149 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
24982113 TATATAAACT
24982123 ATATTTAA
1 ATATTTAA
24982131 ATATTTAA
1 ATATTTAA
24982139 ATATTTAA
1 ATATTTAA
24982147 ATA
1 ATA
24982150 CAAAAATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
ATATTTAA
Found at i:24982426 original size:30 final size:29
Alignment explanation
Indices: 24982392--24982539 Score: 125
Period size: 30 Copynumber: 5.0 Consensus size: 29
24982382 AAAAAATTGG
* * *
24982392 ATTTTGACCCCCAACTTTTTTTGAAATTAT
1 ATTTTGACCCCAAAC-TTTCTTAAAATTAT
* *
24982422 ATTTTAACCTCTAAACTTTCTTAAAATTAT
1 ATTTTGACC-CCAAACTTTCTTAAAATTAT
** *
24982452 ATTTCAACCCCTAAACTTTCTCAAAATTAT
1 ATTTTGACCCC-AAACTTTCTTAAAATTAT
* * * *
24982482 GTTTTGACCCCTAAAATTTCTTGAAATTAA
1 ATTTTGACCCC-AAACTTTCTTAAAATTAT
* * *
24982512 ATTTTGACCCTAAAATTTCTCAAAATTA
1 ATTTTGACCCCAAACTTTCTTAAAATTA
24982540 CACTTTGGCC
Statistics
Matches: 97, Mismatches: 19, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
29 16 0.16
30 77 0.79
31 4 0.04
ACGTcount: A:0.34, C:0.20, G:0.04, T:0.42
Consensus pattern (29 bp):
ATTTTGACCCCAAACTTTCTTAAAATTAT
Found at i:24982462 original size:60 final size:60
Alignment explanation
Indices: 24982415--24982539 Score: 162
Period size: 60 Copynumber: 2.1 Consensus size: 60
24982405 ACTTTTTTTG
* * *
24982415 AAATTATATTTTAACCTCTAAACTTTCTTAAAATTATATTTCAACCCCTAAACTTTCTCA
1 AAATTATATTTTAACCCCTAAAATTTCTTAAAATTAAATTTCAACCCCTAAACTTTCTCA
* * * ** *
24982475 AAATTATGTTTTGACCCCTAAAATTTCTTGAAATTAAATTTTGA-CCCTAAAATTTCTCA
1 AAATTATATTTTAACCCCTAAAATTTCTTAAAATTAAATTTCAACCCCTAAACTTTCTCA
24982534 AAATTA
1 AAATTA
24982540 CACTTTGGCC
Statistics
Matches: 56, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
59 20 0.36
60 36 0.64
ACGTcount: A:0.38, C:0.18, G:0.03, T:0.41
Consensus pattern (60 bp):
AAATTATATTTTAACCCCTAAAATTTCTTAAAATTAAATTTCAACCCCTAAACTTTCTCA
Found at i:24982537 original size:29 final size:30
Alignment explanation
Indices: 24982415--24982539 Score: 144
Period size: 30 Copynumber: 4.2 Consensus size: 30
24982405 ACTTTTTTTG
* * *
24982415 AAATTATATTTTAACCTCTAAACTTTCTTA
1 AAATTATATTTTAACCCCTAAAATTTCTCA
* *
24982445 AAATTATATTTCAACCCCTAAACTTTCTCA
1 AAATTATATTTTAACCCCTAAAATTTCTCA
* * **
24982475 AAATTATGTTTTGACCCCTAAAATTTCTTG
1 AAATTATATTTTAACCCCTAAAATTTCTCA
* *
24982505 AAATTAAATTTTGA-CCCTAAAATTTCTCA
1 AAATTATATTTTAACCCCTAAAATTTCTCA
24982534 AAATTA
1 AAATTA
24982540 CACTTTGGCC
Statistics
Matches: 82, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
29 19 0.23
30 63 0.77
ACGTcount: A:0.38, C:0.18, G:0.03, T:0.41
Consensus pattern (30 bp):
AAATTATATTTTAACCCCTAAAATTTCTCA
Found at i:24982760 original size:21 final size:21
Alignment explanation
Indices: 24982736--24982783 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 21
24982726 ATCAGCCAAC
24982736 GAAA-TTCAAAAAAAAAAGAGA
1 GAAACTTC-AAAAAAAAAGAGA
*
24982757 GAAAAGCTTCGAAAAAAAAGAGA
1 G-AAA-CTTCAAAAAAAAAGAGA
24982780 GAAA
1 GAAA
24982784 AGCTTTGGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
21 1 0.04
22 6 0.26
23 13 0.57
24 3 0.13
ACGTcount: A:0.67, C:0.06, G:0.19, T:0.08
Consensus pattern (21 bp):
GAAACTTCAAAAAAAAAGAGA
Found at i:24982771 original size:23 final size:25
Alignment explanation
Indices: 24982745--24982804 Score: 97
Period size: 23 Copynumber: 2.5 Consensus size: 25
24982735 CGAAATTCAA
24982745 AAAAAAAAGAGAGAAAAGC-TT-CG
1 AAAAAAAAGAGAGAAAAGCTTTGCG
*
24982768 AAAAAAAAGAGAGAAAAGCTTTGGG
1 AAAAAAAAGAGAGAAAAGCTTTGCG
24982793 AAAAAAAAGAGA
1 AAAAAAAAGAGA
24982805 AGAGGAGAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
23 19 0.56
24 2 0.06
25 13 0.38
ACGTcount: A:0.63, C:0.05, G:0.23, T:0.08
Consensus pattern (25 bp):
AAAAAAAAGAGAGAAAAGCTTTGCG
Found at i:24982957 original size:11 final size:11
Alignment explanation
Indices: 24982941--24982965 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
24982931 GGAAAAAAAG
24982941 AAAGAAATAAA
1 AAAGAAATAAA
24982952 AAAGAAATAAA
1 AAAGAAATAAA
24982963 AAA
1 AAA
24982966 TTTTAATACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (11 bp):
AAAGAAATAAA
Found at i:24983303 original size:15 final size:15
Alignment explanation
Indices: 24983259--24983303 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
24983249 GCAGGCCAGA
* *
24983259 AAAAAAAAGAAGAGG
1 AAAAAAAAGAAAAAG
24983274 AAAAAAAAGATAAAAG
1 AAAAAAAAGA-AAAAG
*
24983290 AAAAAAAGGAAAAA
1 AAAAAAAAGAAAAA
24983304 AAACCTAAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
15 14 0.54
16 12 0.46
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (15 bp):
AAAAAAAAGAAAAAG
Found at i:24984696 original size:11 final size:11
Alignment explanation
Indices: 24984680--24984774 Score: 59
Period size: 11 Copynumber: 9.4 Consensus size: 11
24984670 ATTTTTTTAA
24984680 TTTTAAAATAT
1 TTTTAAAATAT
24984691 TTTTAAAATACT
1 TTTTAAAATA-T
*
24984703 TTTT---TTAT
1 TTTTAAAATAT
*
24984711 TTTT--TA-AT
1 TTTTAAAATAT
24984719 -TTTAAAATAT
1 TTTTAAAATAT
24984729 TTTTAAAATACT
1 TTTTAAAATA-T
*
24984741 TTTT----TAA
1 TTTTAAAATAT
24984748 TTTTAAAATAT
1 TTTTAAAATAT
24984759 TTTTAAAATACT
1 TTTTAAAATA-T
24984771 TTTT
1 TTTT
24984775 TTATTTTTAA
Statistics
Matches: 67, Mismatches: 5, Indels: 23
0.71 0.05 0.24
Matches are distributed among these distances:
7 7 0.10
8 9 0.13
9 3 0.04
10 2 0.03
11 31 0.46
12 15 0.22
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:24984719 original size:38 final size:38
Alignment explanation
Indices: 24984667--24984782 Score: 167
Period size: 38 Copynumber: 3.2 Consensus size: 38
24984657 AATAAATATA
24984667 TTTATTTTTTTAATTTTAAAATATTTTTAAAATACTTTT
1 TTTA-TTTTTTAATTTTAAAATATTTTTAAAATACTTTT
24984706 TTTATTTTTTAATTTTAAAATATTTTTAAAATAC----
1 TTTATTTTTTAATTTTAAAATATTTTTAAAATACTTTT
24984740 ----TTTTTTAATTTTAAAATATTTTTAAAATACTTTT
1 TTTATTTTTTAATTTTAAAATATTTTTAAAATACTTTT
24984774 TTTATTTTT
1 TTTATTTTT
24984783 AAAATAAATT
Statistics
Matches: 69, Mismatches: 0, Indels: 17
0.80 0.00 0.20
Matches are distributed among these distances:
30 30 0.43
38 35 0.51
39 4 0.06
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.64
Consensus pattern (38 bp):
TTTATTTTTTAATTTTAAAATATTTTTAAAATACTTTT
Found at i:24984746 original size:30 final size:31
Alignment explanation
Indices: 24984710--24984788 Score: 142
Period size: 30 Copynumber: 2.6 Consensus size: 31
24984700 ACTTTTTTTA
24984710 TTTTTTAATTTTAAAATATTTTTAAAATAC-
1 TTTTTTAATTTTAAAATATTTTTAAAATACT
24984740 TTTTTTAATTTTAAAATATTTTTAAAATACT
1 TTTTTTAATTTTAAAATATTTTTAAAATACT
*
24984771 TTTTTTATTTTTAAAATA
1 TTTTTTAATTTTAAAATA
24984789 AATTTTAAGT
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
30 30 0.64
31 17 0.36
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (31 bp):
TTTTTTAATTTTAAAATATTTTTAAAATACT
Found at i:24984794 original size:21 final size:20
Alignment explanation
Indices: 24984756--24984794 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
24984746 AATTTTAAAA
*
24984756 TATTTTTAAAATACTTTTTT
1 TATTTTTAAAATAATTTTTT
*
24984776 TATTTTTAAAATAAATTTT
1 TATTTTTAAAATAATTTTT
24984795 AAGTGTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTTTTAAAATAATTTTTT
Found at i:24986116 original size:50 final size:50
Alignment explanation
Indices: 24985992--24986177 Score: 189
Period size: 50 Copynumber: 3.7 Consensus size: 50
24985982 GATAATAACA
* * *
24985992 TGCCAAAGCCATGTCCCAAACATGGTCTTACATGGGATGTT-TC-TTGTAC
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGA-GTTCTCATTTTAG
* * * * *
24986041 TGCCAATGCCATATTCCAAATATGGTTTTACATGGGAGTTCTCATTTTGG
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGAGTTCTCATTTTAG
** ** * *
24986091 TGCTC-ATGCCATGTCCCAAACATGGTCTTACGGGGGACCTCTCATCTCAG
1 TGC-CAATGCCATGTCCCAAACATGGTCTTACATGGGAGTTCTCATTTTAG
* *
24986141 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGA
24986178 CCTCTCATAA
Statistics
Matches: 110, Mismatches: 23, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
48 3 0.03
49 35 0.32
50 71 0.65
51 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.30
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGAGTTCTCATTTTAG
Found at i:24986184 original size:100 final size:99
Alignment explanation
Indices: 24985999--24986185 Score: 221
Period size: 100 Copynumber: 1.9 Consensus size: 99
24985989 ACATGCCAAA
* ** * * * * * *
24985999 GCCATGTCCCAAACATGGTCTTACATGGGATGTTTCTTGTACTGCCAATGCCATATTCCAAATAT
1 GCCATGTCCCAAACATGGTCTTACAGGGGACCTCTCATCTACTGCCAACGCCATATCCCAAACAT
* **
24986064 GGTTTTACATGGGAGTTCTCATTTTGGTGCTCAT
66 GGTCTTACATGGGACCTCTCATTTTGGTGCTCAT
* * * *
24986098 GCCATGTCCCAAACATGGTCTTACGGGGGACCTCTCATCTCAGTGCCAACGCCATGTCCCAGACA
1 GCCATGTCCCAAACATGGTCTTACAGGGGACCTCTCATCT-ACTGCCAACGCCATATCCCAAACA
24986163 TGGTCTTACATGGGACCTCTCAT
65 TGGTCTTACATGGGACCTCTCAT
24986186 AATCTCAATG
Statistics
Matches: 71, Mismatches: 16, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
99 33 0.46
100 38 0.54
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (99 bp):
GCCATGTCCCAAACATGGTCTTACAGGGGACCTCTCATCTACTGCCAACGCCATATCCCAAACAT
GGTCTTACATGGGACCTCTCATTTTGGTGCTCAT
Done.