Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 ID=Chr12-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: 35429946
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 509281 characters in sequence are not A, C, G, or T
File 48 of 120
Found at i:13136679 original size:117 final size:116
Alignment explanation
Indices: 13136450--13136710 Score: 330
Period size: 117 Copynumber: 2.2 Consensus size: 116
13136440 GTGCTAAACG
* *
13136450 ATGGTCGAAACCATCCCTTTTCATATTCAATGGTCAAAGCCATCCCTTTTCATATTCGATGGTCG
1 ATGGTCGAAACCATCCCTTTTCATATTCAATAGTCAAAGCCATCCATTTTCATATTCGATGGTCG
* * *
13136515 AAACCATCCCTTTTCATATTTGATAGTCGTCACCATCCCTTTACATATTCG
66 AAACCATCCCTTTTCATATTTAATAGTCGTCACCATCCCTTTACATATCCA
* ** *
13136566 ATGGTC-ATCACCATCCCTTTTCATATTTGATAGTCGAAA-CCATCCATTTTCTTTAATT-GATG
1 ATGGTCGA-AACCATCCCTTTTCATATTCAATAGTC-AAAGCCATCCATTTTC-AT-ATTCGATG
* * * * *
13136628 GTCGAAGCCATCCTTTTTCATATTTAATGGTCGTCACCATCTCTTTTCATATCCA
62 GTCGAAACCATCCCTTTTCATATTTAATAGTCGTCACCATCCCTTTACATATCCA
*
13136683 ATGGTCGAAACCATCCGTTTTCATATTC
1 ATGGTCGAAACCATCCCTTTTCATATTC
13136711 GATGGGTGTC
Statistics
Matches: 123, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
115 1 0.01
116 40 0.33
117 78 0.63
118 4 0.03
ACGTcount: A:0.25, C:0.26, G:0.12, T:0.38
Consensus pattern (116 bp):
ATGGTCGAAACCATCCCTTTTCATATTCAATAGTCAAAGCCATCCATTTTCATATTCGATGGTCG
AAACCATCCCTTTTCATATTTAATAGTCGTCACCATCCCTTTACATATCCA
Found at i:13139193 original size:50 final size:50
Alignment explanation
Indices: 13139117--13139293 Score: 257
Period size: 50 Copynumber: 3.7 Consensus size: 50
13139107 ATTTGGGTAA
*
13139117 AGAGGTCCCATGTAAGACCATTTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* *
13139167 AGAGGTTCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
13139217 AGAGGTCCCATGTAAGACCATG--T----C-T---GTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
13139257 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGT
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGT
13139294 CTGGGACATG
Statistics
Matches: 113, Mismatches: 4, Indels: 20
0.82 0.03 0.15
Matches are distributed among these distances:
40 37 0.33
42 1 0.01
43 1 0.01
44 1 0.01
46 1 0.01
47 1 0.01
48 1 0.01
50 70 0.62
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:13139245 original size:40 final size:40
Alignment explanation
Indices: 13139201--13139282 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
13139191 TGGGACATGG
13139201 TGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTC
1 TGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTC
13139241 TGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTC
1 TGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTC
13139281 TG
1 TG
13139283 GGACATGGCG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.23
Consensus pattern (40 bp):
TGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTC
Found at i:13139297 original size:14 final size:14
Alignment explanation
Indices: 13139278--13139305 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
13139268 GTAAGACCAT
13139278 GTCTGGGACATGGC
1 GTCTGGGACATGGC
13139292 GTCTGGGACATGGC
1 GTCTGGGACATGGC
13139306 ATGGACACCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.43, T:0.21
Consensus pattern (14 bp):
GTCTGGGACATGGC
Found at i:13152169 original size:63 final size:63
Alignment explanation
Indices: 13152082--13152208 Score: 236
Period size: 63 Copynumber: 2.0 Consensus size: 63
13152072 TAATTTACTA
*
13152082 ATCTCACGTAATACCTTCTAACATTTTGGAGAAATAAGGTAGGCAAGGGAAGGAGAAATAAAG
1 ATCTCACGTAATACCTTCTAACATTTTGGAAAAATAAGGTAGGCAAGGGAAGGAGAAATAAAG
*
13152145 ATCTCACGTAATACCTTCTAACATTTTGGAAAAATAAGGTAGGCAAGGGAAGGAGAGATAAAG
1 ATCTCACGTAATACCTTCTAACATTTTGGAAAAATAAGGTAGGCAAGGGAAGGAGAAATAAAG
13152208 A
1 A
13152209 GGTGATCTTG
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.22
Consensus pattern (63 bp):
ATCTCACGTAATACCTTCTAACATTTTGGAAAAATAAGGTAGGCAAGGGAAGGAGAAATAAAG
Found at i:13153362 original size:3 final size:3
Alignment explanation
Indices: 13153354--13153384 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
13153344 AGCTTAGCTT
13153354 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
13153385 AGGGTTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:13158355 original size:21 final size:21
Alignment explanation
Indices: 13158329--13158371 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
13158319 AGAACACACC
13158329 AACAGAAGCTCATAAGAGTTG
1 AACAGAAGCTCATAAGAGTTG
* *
13158350 AACAGAAGCTCGTGAGAGTTG
1 AACAGAAGCTCATAAGAGTTG
13158371 A
1 A
13158372 TCCACCCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.14, G:0.28, T:0.19
Consensus pattern (21 bp):
AACAGAAGCTCATAAGAGTTG
Found at i:13159227 original size:30 final size:30
Alignment explanation
Indices: 13159193--13159254 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
13159183 CATAAAAATT
13159193 TTGCCTAGAAACTTTCTAATTTCACTTTTA
1 TTGCCTAGAAACTTTCTAATTTCACTTTTA
13159223 TTGCCTAGAAACTTTCTAATTTCACTTTTA
1 TTGCCTAGAAACTTTCTAATTTCACTTTTA
13159253 TT
1 TT
13159255 TTATTTTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.26, C:0.19, G:0.06, T:0.48
Consensus pattern (30 bp):
TTGCCTAGAAACTTTCTAATTTCACTTTTA
Found at i:13161095 original size:67 final size:68
Alignment explanation
Indices: 13160982--13161384 Score: 366
Period size: 68 Copynumber: 6.0 Consensus size: 68
13160972 TTAGAGTTAG
*** *
13160982 CGATTTAAGATTGCGCTTCTATCTTACAGTCCATTGATTTAAGATCACAACTAACCTACATAGCA
1 CGATTTAAGATCATGCTTCTATCTTACAGTCCATTGATTTAAGATCACGACTAACCTACATAGCA
13161047 TGC
66 TGC
* * ** * * *
13161050 CGACTTAAGATTATATTTCT-TCTTACAGTCCATTGATTTAAGATCATGGCTAACCTACATAACA
1 CGATTTAAGATCATGCTTCTATCTTACAGTCCATTGATTTAAGATCACGACTAACCTACATAGCA
13161114 TGC
66 TGC
** * ** * * * * *
13161117 CGATTTAAGATTGTGCTTCTATATTGTAGTCCAGTGATTTGAGATCACGGCTAGCCTGCATAGCA
1 CGATTTAAGATCATGCTTCTATCTTACAGTCCATTGATTTAAGATCACGACTAACCTACATAGCA
*
13161182 TGT
66 TGC
* * * * *
13161185 CGATTTAAGATCAGGCTTCTATCTT-CAGTCCGTTGCTTTAAAATCATGACTAACCTACATAGCA
1 CGATTTAAGATCATGCTTCTATCTTACAGTCCATTGATTTAAGATCACGACTAACCTACATAGCA
*
13161249 CGC
66 TGC
** * *
13161252 CGATTTAAGATCGCGTTTCTATCTTATAGTCTGC-TT-ATTTAAGATCACGACTAACCTACATAG
1 CGATTTAAGATCATGCTTCTATCTTACAGTC--CATTGATTTAAGATCACGACTAACCTACATAG
13161315 CATGC
64 CATGC
* * * * * ** * * *
13161320 CGATTTAAAATCACGTTTTTATCTTATAGTCTGTTGATTTAATATCAC-AGCTAGCCTAAATAGC
1 CGATTTAAGATCATGCTTCTATCTTACAGTCCATTGATTTAAGATCACGA-CTAACCTACATAGC
13161384 A
65 A
13161385 GTTTTCTCAG
Statistics
Matches: 274, Mismatches: 54, Indels: 14
0.80 0.16 0.04
Matches are distributed among these distances:
67 114 0.42
68 157 0.57
69 2 0.01
70 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (68 bp):
CGATTTAAGATCATGCTTCTATCTTACAGTCCATTGATTTAAGATCACGACTAACCTACATAGCA
TGC
Found at i:13161189 original size:68 final size:68
Alignment explanation
Indices: 13160982--13161327 Score: 369
Period size: 68 Copynumber: 5.1 Consensus size: 68
13160972 TTAGAGTTAG
* **
13160982 CGATTTAAGATTGCGCTTCTATCTTACAGTCCATTGATTTAAGATCACAACTAACCTACATAGCA
1 CGATTTAAGATTGTGCTTCTATCTTACAGTCCATTGATTTAAGATCACGGCTAACCTACATAGCA
13161047 TGC
66 TGC
* * ** * *
13161050 CGACTTAAGATTATATTTCT-TCTTACAGTCCATTGATTTAAGATCATGGCTAACCTACATAACA
1 CGATTTAAGATTGTGCTTCTATCTTACAGTCCATTGATTTAAGATCACGGCTAACCTACATAGCA
13161114 TGC
66 TGC
* ** * * * *
13161117 CGATTTAAGATTGTGCTTCTATATTGTAGTCCAGTGATTTGAGATCACGGCTAGCCTGCATAGCA
1 CGATTTAAGATTGTGCTTCTATCTTACAGTCCATTGATTTAAGATCACGGCTAACCTACATAGCA
*
13161182 TGT
66 TGC
* * * * * *
13161185 CGATTTAAGATCAG-GCTTCTATCTT-CAGTCCGTTGCTTTAAAATCATGACTAACCTACATAGC
1 CGATTTAAGAT-TGTGCTTCTATCTTACAGTCCATTGATTTAAGATCACGGCTAACCTACATAGC
*
13161248 ACGC
65 ATGC
* * * * *
13161252 CGATTTAAGATCGCGTTTCTATCTTATAGTCTGC-TT-ATTTAAGATCACGACTAACCTACATAG
1 CGATTTAAGATTGTGCTTCTATCTTACAGTC--CATTGATTTAAGATCACGGCTAACCTACATAG
13161315 CATGC
64 CATGC
13161320 CGATTTAA
1 CGATTTAA
13161328 AATCACGTTT
Statistics
Matches: 228, Mismatches: 44, Indels: 12
0.80 0.15 0.04
Matches are distributed among these distances:
66 1 0.00
67 110 0.48
68 113 0.50
69 3 0.01
70 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.34
Consensus pattern (68 bp):
CGATTTAAGATTGTGCTTCTATCTTACAGTCCATTGATTTAAGATCACGGCTAACCTACATAGCA
TGC
Found at i:13161225 original size:135 final size:135
Alignment explanation
Indices: 13160982--13161332 Score: 427
Period size: 135 Copynumber: 2.6 Consensus size: 135
13160972 TTAGAGTTAG
* * *
13160982 CGATTTAAGATTGCGCTTCTATCTTACAGTCCATTGATTTAAGATCACAACTAACCTACATAGCA
1 CGATTTAAGATTGCGCTTCTATCTTATAGTCCAGTGATTTAAGATCACGACTAACCTACATAGCA
* * * * * *
13161047 TGCCGACTTAAGATTATATTTCTTCTTACAGTCCATTGATTTAAGATCATGGCTAACCTACATAA
66 TGCCGATTTAAGATCAGACTTCTTCTTACAGTCCATTGATTTAAAATCATGACTAACCTACATAA
*
13161112 CATGC
131 CACGC
* * * * * * *
13161117 CGATTTAAGATTGTGCTTCTATATTGTAGTCCAGTGATTTGAGATCACGGCTAGCCTGCATAGCA
1 CGATTTAAGATTGCGCTTCTATCTTATAGTCCAGTGATTTAAGATCACGACTAACCTACATAGCA
* * * *
13161182 TGTCGATTTAAGATCAGGCTTCTATCTT-CAGTCCGTTGCTTTAAAATCATGACTAACCTACATA
66 TGCCGATTTAAGATCAGACTTCT-TCTTACAGTCCATTGATTTAAAATCATGACTAACCTACATA
*
13161246 GCACGC
130 ACACGC
* * * *
13161252 CGATTTAAGATCGCGTTTCTATCTTATAGT-CTGCTTATTTAAGATCACGACTAACCTACATAGC
1 CGATTTAAGATTGCGCTTCTATCTTATAGTCCAG-TGATTTAAGATCACGACTAACCTACATAGC
*
13161316 ATGCCGATTTAAAATCA
65 ATGCCGATTTAAGATCA
13161333 CGTTTTTATC
Statistics
Matches: 179, Mismatches: 35, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
134 2 0.01
135 173 0.97
136 4 0.02
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (135 bp):
CGATTTAAGATTGCGCTTCTATCTTATAGTCCAGTGATTTAAGATCACGACTAACCTACATAGCA
TGCCGATTTAAGATCAGACTTCTTCTTACAGTCCATTGATTTAAAATCATGACTAACCTACATAA
CACGC
Found at i:13161326 original size:34 final size:34
Alignment explanation
Indices: 13161221--13161334 Score: 90
Period size: 34 Copynumber: 3.4 Consensus size: 34
13161211 AGTCCGTTGC
* *
13161221 TTTAAAATCATGACTAACCTACATAGCACGCCGA
1 TTTAAAATCACGACTAACCTACATAGCATGCCGA
* * * * * **
13161255 TTTAAGATCGCGTTTCT-ATCT-TATAGTC-TGCTTA
1 TTTAAAATCACG--ACTAACCTACATAG-CATGCCGA
*
13161289 TTTAAGATCACGACTAACCTACATAGCATGCCGA
1 TTTAAAATCACGACTAACCTACATAGCATGCCGA
13161323 TTTAAAATCACG
1 TTTAAAATCACG
13161335 TTTTTATCTT
Statistics
Matches: 58, Mismatches: 16, Indels: 12
0.67 0.19 0.14
Matches are distributed among these distances:
32 2 0.03
33 4 0.07
34 46 0.79
35 4 0.07
36 2 0.03
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (34 bp):
TTTAAAATCACGACTAACCTACATAGCATGCCGA
Found at i:13174738 original size:21 final size:21
Alignment explanation
Indices: 13174714--13174756 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
13174704 TAGATACTTA
*
13174714 TGCACAAA-TTTAATTTCTAAT
1 TGCA-AAACTTTAATATCTAAT
13174735 TGCAAAACTTTAATATCTAAT
1 TGCAAAACTTTAATATCTAAT
13174756 T
1 T
13174757 TCCAAAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.40, C:0.14, G:0.05, T:0.42
Consensus pattern (21 bp):
TGCAAAACTTTAATATCTAAT
Found at i:13175250 original size:19 final size:19
Alignment explanation
Indices: 13175228--13175264 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
13175218 AATCGTAAGT
*
13175228 CATTAATGATACTAAATAA
1 CATTAATAATACTAAATAA
*
13175247 CATTAATAATAGTAAATA
1 CATTAATAATACTAAATA
13175265 GTAATAACAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.54, C:0.08, G:0.05, T:0.32
Consensus pattern (19 bp):
CATTAATAATACTAAATAA
Found at i:13178978 original size:16 final size:16
Alignment explanation
Indices: 13178957--13178990 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
13178947 AATTACTGAT
*
13178957 AGTGCGTCCAGTTGGA
1 AGTGCGTCCAGCTGGA
*
13178973 AGTGCGTCTAGCTGGA
1 AGTGCGTCCAGCTGGA
13178989 AG
1 AG
13178991 CACTTTTAGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.18, G:0.38, T:0.24
Consensus pattern (16 bp):
AGTGCGTCCAGCTGGA
Found at i:13181181 original size:21 final size:19
Alignment explanation
Indices: 13181133--13181207 Score: 114
Period size: 19 Copynumber: 3.8 Consensus size: 19
13181123 AATCTTCAAG
13181133 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
13181152 GACATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
13181171 GATATATGCAATCTTGGATAT
1 G--ATATGCAATCTTAGATAT
13181192 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
13181208 AGATATGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 33 0.66
21 17 0.34
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:13185256 original size:12 final size:12
Alignment explanation
Indices: 13185239--13185273 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
13185229 GTAAATTCAC
13185239 ACATTCTTTTGT
1 ACATTCTTTTGT
*
13185251 ACATTCTTTCGT
1 ACATTCTTTTGT
*
13185263 ATATTCTTTTG
1 ACATTCTTTTG
13185274 CACTTACTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.17, C:0.17, G:0.09, T:0.57
Consensus pattern (12 bp):
ACATTCTTTTGT
Found at i:13186122 original size:6 final size:6
Alignment explanation
Indices: 13186107--13186156 Score: 52
Period size: 6 Copynumber: 8.5 Consensus size: 6
13186097 CAAATATTTC
*
13186107 AAAA-A AAAAGA AAAAGA AAAAG- -AAAGA AAAAGCCA AAAAAA AAAAGA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAG--A AAAAGA AAAAGA
13186154 AAA
1 AAA
13186157 GGAGAGGCCA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
4 4 0.11
5 4 0.11
6 25 0.66
8 5 0.13
ACGTcount: A:0.84, C:0.04, G:0.12, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:13188193 original size:88 final size:88
Alignment explanation
Indices: 13187396--13188189 Score: 1147
Period size: 88 Copynumber: 9.0 Consensus size: 88
13187386 GAAATCACTA
* * *
13187396 AGCCTTGTCTCCCTGGGTCGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCACCGA
13187461 CAGTGAAGCAGATCGAAGATACC
66 CAGTGAAGCAGATCGAAGATACC
* * * *
13187484 AACCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGACAGCAGATCTTGCCTTCCTGCATCAA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCACCGA
* * *
13187549 CAGCGAATCAAATCGAAGATACC
66 CAGTGAAGCAGATCGAAGATACC
* * * *
13187572 AGCCTTGCCTCCCTGGGTCGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTATCAA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCACCGA
*
13187637 CAGCGAAGCAGATCGAAGATACC
66 CAGTGAAGCAGATCGAAGATACC
* ** *
13187660 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAAGTTGAAGATAGCAGATCTTGCCTTCCTTTACTGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCACCGA
13187725 CAGTGAAGCAGATCGAAGATACC
66 CAGTGAAGCAGATCGAAGATACC
* * ** *
13187748 AGCCTTGTCTCCTTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTTTTGTACCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCACCGA
*
13187813 CAGTGAAGTAGATCGAAGATACC
66 CAGTGAAGCAGATCGAAGATACC
* * *
13187836 AGCCTTGCCTCCCTGGGTTCTAGTGGAGCAAGTTAAAGATAGCAGATCTTGCCTTCCTGCACCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCACCGA
13187901 CAGTGAAGCAGATCGAAGATACC
66 CAGTGAAGCAGATCGAAGATACC
* * * * *
13187924 AGCCTTGCCTTCTTGGGTTGTAGTGGAGCAAGTTGAAGATAGCAGACCTTGCCTTCCTGCATCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCACCGA
13187989 CAGTGAAGCAGATCGAAGATACC
66 CAGTGAAGCAGATCGAAGATACC
* * **
13188012 AGCCTTGCCTCCCTGGGTCGTAGTGGAGCAGGTTGAAGATAGAAGATCTTGCCTTCCTATACCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCACCGA
* * *
13188077 CAGTGAAGCAGATCAAAGACACT
66 CAGTGAAGCAGATCGAAGATACC
* * * * * *
13188100 AGTCTTGCCTCCCTGGGTTGTAGCGGAGCAGGCTGAAGATAGTACATCTTGCCTTCTTGCACCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCACCGA
* * *
13188165 CAGCGAAGCAGACCGAAGACACC
66 CAGTGAAGCAGATCGAAGATACC
13188188 AG
1 AG
13188190 TCTTATCGAA
Statistics
Matches: 637, Mismatches: 69, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 637 1.00
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (88 bp):
AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCACCGA
CAGTGAAGCAGATCGAAGATACC
Found at i:13188405 original size:45 final size:45
Alignment explanation
Indices: 13188308--13188469 Score: 157
Period size: 45 Copynumber: 3.6 Consensus size: 45
13188298 AAGATATCAG
* * * *
13188308 GTCTTATCTCCTTGAAGTTGC-GAAGGAGCAGACCCAAGAAAGCGA
1 GTCTTATCTCCCTGAAGTTGCAG-TGGAGCAGACTCAAGAAAGCAA
* *
13188353 GTTTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGTAA
1 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAA
* * * * *
13188398 GTCTTATCCCCCTGAAATTGCAGTGGGGCAGACTAAATAAA-CAA
1 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAA
* * * * *
13188442 ATCCTGTCTCCCTAAAGTTGTAGTGGAG
1 GTCTTATCTCCCTGAAGTTGCAGTGGAG
13188470 TGGATTAGAA
Statistics
Matches: 95, Mismatches: 21, Indels: 3
0.80 0.18 0.03
Matches are distributed among these distances:
44 22 0.23
45 72 0.76
46 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (45 bp):
GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAA
Found at i:13189060 original size:21 final size:19
Alignment explanation
Indices: 13188995--13189109 Score: 176
Period size: 19 Copynumber: 5.8 Consensus size: 19
13188985 AATCTTCAAG
*
13188995 GATATGCAATCTTAAATAT
1 GATATGCAATCTTAGATAT
13189014 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
13189033 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
13189052 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
13189073 GATATATGCAATCTTGGATAT
1 G--ATATGCAATCTTAGATAT
13189094 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
13189110 AGATATGATT
Statistics
Matches: 91, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
19 52 0.57
21 39 0.43
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:13189070 original size:40 final size:38
Alignment explanation
Indices: 13188995--13189116 Score: 176
Period size: 40 Copynumber: 3.2 Consensus size: 38
13188985 AATCTTCAAG
*
13188995 GATATGCAATCTTAAATATGATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGCAATCTTAGATAT
13189033 GATATGCAATCTTAGATATGATATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATATG--ATATGCAATCTTAGATAT
*
13189073 GATATATGCAATCTTGGATATGATATGCAATCTTAGA-A-
1 G--ATATGCAATCTTAGATATGATATGCAATCTTAGATAT
13189111 GATATG
1 GATATG
13189117 ATTTTGTAAT
Statistics
Matches: 78, Mismatches: 2, Indels: 10
0.87 0.02 0.11
Matches are distributed among these distances:
36 5 0.06
38 20 0.26
39 1 0.01
40 34 0.44
42 18 0.23
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATATGCAATCTTAGATAT
Found at i:13195024 original size:33 final size:33
Alignment explanation
Indices: 13194982--13195047 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
13194972 ATGATTGGAA
*
13194982 TGGTAGTTACAGCAAAGTTTCTGTGTCCATAGT
1 TGGTAGTTACAGCAAAGTTTCTATGTCCATAGT
*
13195015 TGGTAGTTACAGTAAAGTTTCTATGTCCATAGT
1 TGGTAGTTACAGCAAAGTTTCTATGTCCATAGT
13195048 CATGCTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.38
Consensus pattern (33 bp):
TGGTAGTTACAGCAAAGTTTCTATGTCCATAGT
Found at i:13197288 original size:3 final size:3
Alignment explanation
Indices: 13197275--13197338 Score: 119
Period size: 3 Copynumber: 21.0 Consensus size: 3
13197265 CTAAGCAAAT
13197275 TAA TGAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
13197321 TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA
13197339 GCAAACTATT
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 57 0.95
4 3 0.05
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:13201792 original size:3 final size:3
Alignment explanation
Indices: 13201784--13201810 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
13201774 AGCAGAAGGG
13201784 TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT
13201811 AAAACCAGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:13202399 original size:20 final size:20
Alignment explanation
Indices: 13202370--13202409 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
13202360 GAATTGTTCT
13202370 AAAAAGATAA-AATAGAGAGA
1 AAAAAGATAACAA-AGAGAGA
*
13202390 AAAAATATAACAAAGAGAGA
1 AAAAAGATAACAAAGAGAGA
13202410 TAAACAAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.70, C:0.03, G:0.17, T:0.10
Consensus pattern (20 bp):
AAAAAGATAACAAAGAGAGA
Found at i:13204405 original size:70 final size:66
Alignment explanation
Indices: 13204296--13204422 Score: 175
Period size: 70 Copynumber: 1.9 Consensus size: 66
13204286 AATATAAAGA
* *
13204296 GTTTTGCCTTTTAACTTAATAAGTAAACATTTATCAAAACGACGTAATTTTGCCTTTTAATTTAA
1 GTTTTGACTTTTAACTTAATAAGTAAACATTTATCAAAACAACGTAATTTT-CCTTTTAATTTAA
13204361 TG
65 TG
*
13204363 GTTTTGACTTTTAACTTTTGAA-AAGATAAACATTTATTAAAACAACGTAATTTTCCTTTT
1 GTTTTGACTTTTAAC--TT-AATAAG-TAAACATTTATCAAAACAACGTAATTTTCCTTTT
13204423 TTTATTCGGA
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
67 14 0.26
69 11 0.21
70 28 0.53
ACGTcount: A:0.34, C:0.13, G:0.09, T:0.44
Consensus pattern (66 bp):
GTTTTGACTTTTAACTTAATAAGTAAACATTTATCAAAACAACGTAATTTTCCTTTTAATTTAAT
G
Found at i:13210169 original size:31 final size:28
Alignment explanation
Indices: 13210134--13210190 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 28
13210124 CTGTAGTTCA
*
13210134 TTGGGAGGAAAAACAGCCCAATAATGCATTT
1 TTGGG-GG-AAAA-AGCCCAAGAATGCATTT
*
13210165 TTGGGGGTAAAAGCCCAAGAATGCAT
1 TTGGGGGAAAAAGCCCAAGAATGCAT
13210191 ATGAAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 14 0.58
29 3 0.12
30 2 0.08
31 5 0.21
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (28 bp):
TTGGGGGAAAAAGCCCAAGAATGCATTT
Found at i:13220389 original size:18 final size:18
Alignment explanation
Indices: 13220368--13220403 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
13220358 AGCTCAATCA
13220368 ATTTT-TTTATGTTTTTTT
1 ATTTTGTTT-TGTTTTTTT
13220386 ATTTTGTTTTGTTTTTTT
1 ATTTTGTTTTGTTTTTTT
13220404 TTATTTCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.82
19 3 0.18
ACGTcount: A:0.08, C:0.00, G:0.08, T:0.83
Consensus pattern (18 bp):
ATTTTGTTTTGTTTTTTT
Found at i:13220405 original size:10 final size:10
Alignment explanation
Indices: 13220369--13220409 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
13220359 GCTCAATCAA
*
13220369 TTTTTTTATG
1 TTTTTTTATT
13220379 TTTTTTTATT
1 TTTTTTTATT
* *
13220389 TTGTTTTGTT
1 TTTTTTTATT
13220399 TTTTTTTATT
1 TTTTTTTATT
13220409 T
1 T
13220410 CAATTTCTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.07, C:0.00, G:0.07, T:0.85
Consensus pattern (10 bp):
TTTTTTTATT
Found at i:13230030 original size:32 final size:33
Alignment explanation
Indices: 13229970--13230032 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 33
13229960 TCCTTGGTAG
* * * *
13229970 TTATAAAAAAAACATGCATATAATTGTAATCAC
1 TTATAAAAAAAACAAGAACATAAATGTAATCAC
13230003 TTAT-AAAAAAACAAGAACATAAATGTAATC
1 TTATAAAAAAAACAAGAACATAAATGTAATC
13230033 CTTGGGACTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
32 22 0.85
33 4 0.15
ACGTcount: A:0.56, C:0.11, G:0.06, T:0.27
Consensus pattern (33 bp):
TTATAAAAAAAACAAGAACATAAATGTAATCAC
Found at i:13236667 original size:34 final size:35
Alignment explanation
Indices: 13236629--13236695 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
13236619 CAGTAAAATA
* *
13236629 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCATAAAATGATTTACTGGAAAATATTTTAC
*
13236663 TTTTCTATAAAATGATTTACTGGAAAATATTTT
1 TTTTCCATAAAATGATTTACTGGAAAATATTTT
13236696 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCATAAAATGATTTACTGGAAAATATTTTAC
Found at i:13238246 original size:6 final size:6
Alignment explanation
Indices: 13238235--13238259 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
13238225 AATGTATCAT
13238235 TTAAAA TTAAAA TTAAAA TTAAAA T
1 TTAAAA TTAAAA TTAAAA TTAAAA T
13238260 AATTATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (6 bp):
TTAAAA
Found at i:13241633 original size:10 final size:10
Alignment explanation
Indices: 13241618--13241642 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
13241608 TGAATTTTTT
13241618 TCTTTTATTA
1 TCTTTTATTA
13241628 TCTTTTATTA
1 TCTTTTATTA
13241638 TCTTT
1 TCTTT
13241643 GATTTACAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.72
Consensus pattern (10 bp):
TCTTTTATTA
Found at i:13248026 original size:31 final size:31
Alignment explanation
Indices: 13247941--13248150 Score: 98
Period size: 31 Copynumber: 6.8 Consensus size: 31
13247931 TAAGGTGTCC
13247941 AACACCGGTACATAGTACTTGATAAAATATA
1 AACACCGGTACATAGTACTTGATAAAATATA
* * * * *
13247972 AACACCAGCACATGGTGCCTGATACAAA-ATA
1 AACACCGGTACATAGTACTTGATA-AAATATA
* * *
13248003 AACATCGGTATATAGTACTTGATATAATATA
1 AACACCGGTACATAGTACTTGATAAAATATA
** * ** * * * *
13248034 GTCACCGATATGTAGTACCTGACATAATAGA
1 AACACCGGTACATAGTACTTGATAAAATATA
** * * * * *
13248065 GTCATCGATACGTAGTACCTGATATAATATA
1 AACACCGGTACATAGTACTTGATAAAATATA
** ** * * *
13248096 GTCACTAGTACATAGTACCTGATATAATATG
1 AACACCGGTACATAGTACTTGATAAAATATA
* * *
13248127 ATCATCGGTACATAGTACCTGATA
1 AACACCGGTACATAGTACTTGATA
13248151 CTTTTAAATT
Statistics
Matches: 142, Mismatches: 35, Indels: 4
0.78 0.19 0.02
Matches are distributed among these distances:
30 2 0.01
31 137 0.96
32 3 0.02
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.28
Consensus pattern (31 bp):
AACACCGGTACATAGTACTTGATAAAATATA
Found at i:13248055 original size:62 final size:62
Alignment explanation
Indices: 13247941--13248150 Score: 160
Period size: 62 Copynumber: 3.4 Consensus size: 62
13247931 TAAGGTGTCC
* * * ** * *
13247941 AACACCGGTACATAGTACTTGATAAAATATAAACACCAGCACATG--GTGCCTGATACAAAATA
1 AACATCGGTACATAGTACCTGATATAATATAGTCACC-G-ATATGTAGTACCTGATACAAAATA
* * *
13248003 AACATCGGTATATAGTACTTGATATAATATAGTCACCGATATGTAGTACCTG--ACATAATA
1 AACATCGGTACATAGTACCTGATATAATATAGTCACCGATATGTAGTACCTGATACAAAATA
* * * * ** * * *
13248063 GAGTCATCGATACGTAGTACCTGATATAATATAGTCA-CTAGTACATAGTACCTGATATAATATG
1 -A-ACATCGGTACATAGTACCTGATATAATATAGTCACCGA-TATGTAGTACCTGATACAAAATA
*
13248127 ATCATCGGTACATAGTACCTGATA
1 AACATCGGTACATAGTACCTGATA
13248151 CTTTTAAATT
Statistics
Matches: 119, Mismatches: 22, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
60 11 0.09
61 4 0.03
62 99 0.83
63 1 0.01
64 4 0.03
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.28
Consensus pattern (62 bp):
AACATCGGTACATAGTACCTGATATAATATAGTCACCGATATGTAGTACCTGATACAAAATA
Found at i:13252985 original size:3 final size:3
Alignment explanation
Indices: 13252979--13253012 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
13252969 TTTCTATAAT
13252979 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
13253013 GAATTGGGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:13259380 original size:18 final size:17
Alignment explanation
Indices: 13259336--13259381 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
13259326 AAAAGTGACT
*
13259336 TTGATATTGAAAGTAAA
1 TTGAAATTGAAAGTAAA
*
13259353 TTGTACATTGAAAGTGAAA
1 TTG-AAATTGAAAGT-AAA
13259372 TTGAAATTGA
1 TTGAAATTGA
13259382 GAAAGTGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 3 0.12
18 16 0.64
19 6 0.24
ACGTcount: A:0.43, C:0.02, G:0.20, T:0.35
Consensus pattern (17 bp):
TTGAAATTGAAAGTAAA
Found at i:13276177 original size:50 final size:50
Alignment explanation
Indices: 13276071--13276182 Score: 125
Period size: 50 Copynumber: 2.2 Consensus size: 50
13276061 AAGAGGTCCA
* * **
13276071 ATGTAAGACCATCTCTGGGACATGGCATTGCCACCGAGATGAGAGGTCCC
1 ATGTAAGACCATCTCTAGGACATGGCATGGCCACCGAGATGAGAACTCCC
** * * * *
13276121 CCGTAAGACCATGTCTAGGACATGGCATGGGCACCGATATGAGAACTCTC
1 ATGTAAGACCATCTCTAGGACATGGCATGGCCACCGAGATGAGAACTCCC
*
13276171 ATGTAAGGCCAT
1 ATGTAAGACCAT
13276183 ATTTGGGATA
Statistics
Matches: 49, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.28, C:0.25, G:0.27, T:0.21
Consensus pattern (50 bp):
ATGTAAGACCATCTCTAGGACATGGCATGGCCACCGAGATGAGAACTCCC
Found at i:13287500 original size:22 final size:21
Alignment explanation
Indices: 13287475--13287518 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
13287465 TGATAAACTT
13287475 TAATATATA-ATTATATTATTTA
1 TAATATATATATTA-ATT-TTTA
*
13287497 TAATTTATATATTAATTTTTA
1 TAATATATATATTAATTTTTA
13287518 T
1 T
13287519 CAACTTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 11 0.55
23 4 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TAATATATATATTAATTTTTA
Found at i:13297098 original size:3 final size:3
Alignment explanation
Indices: 13297090--13297174 Score: 161
Period size: 3 Copynumber: 28.3 Consensus size: 3
13297080 ACTTAGTTGT
13297090 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
13297138 TTA TTA GTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
13297175 CATGACCCCT
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 80 1.00
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:13299474 original size:31 final size:29
Alignment explanation
Indices: 13299400--13299483 Score: 105
Period size: 31 Copynumber: 2.7 Consensus size: 29
13299390 ATAAACACAA
*
13299400 AAAAAAATTTAGAAAATTAACAAAAGTATTTT
1 AAAAATATTTA-AAAA-TAA-AAAAGTATTTT
13299432 AAAAATATTTAAAAATAAAAAAGTATTTTT
1 AAAAATATTTAAAAATAAAAAAGTA-TTTT
*
13299462 AAAATATTTTTAAAAATAAAAA
1 AAAA-ATATTTAAAAATAAAAA
13299484 TATATATTTA
Statistics
Matches: 48, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
29 7 0.15
30 11 0.23
31 20 0.42
32 10 0.21
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (29 bp):
AAAAATATTTAAAAATAAAAAAGTATTTT
Found at i:13299500 original size:31 final size:31
Alignment explanation
Indices: 13299407--13299493 Score: 99
Period size: 31 Copynumber: 2.8 Consensus size: 31
13299397 CAAAAAAAAA
*
13299407 TTTAGAAAATTAACAAAAGTAT-TTTAAAA-ATA
1 TTTA-AAAA-TAA-AAAAGTATATTTAAAATATT
*
13299439 TTTAAAAATAAAAAAGTATTTTTAAAATATT
1 TTTAAAAATAAAAAAGTATATTTAAAATATT
13299470 TTTAAAAATAAAAATA-TATATTTA
1 TTTAAAAATAAAAA-AGTATATTTA
13299494 TTATATTCGG
Statistics
Matches: 50, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
29 8 0.16
30 10 0.20
31 27 0.54
32 5 0.10
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.39
Consensus pattern (31 bp):
TTTAAAAATAAAAAAGTATATTTAAAATATT
Found at i:13300356 original size:31 final size:31
Alignment explanation
Indices: 13300321--13300397 Score: 136
Period size: 31 Copynumber: 2.5 Consensus size: 31
13300311 AAAAATTGTT
*
13300321 ATTTTAGTCACTCTAGTTAGATAAGTTGTCA
1 ATTTTAGTCACTCTAGTTAGATAAGTTATCA
*
13300352 ATTTTAGTCACTCTCGTTAGATAAGTTATCA
1 ATTTTAGTCACTCTAGTTAGATAAGTTATCA
13300383 ATTTTAGTCACTCTA
1 ATTTTAGTCACTCTA
13300398 CCACCTTTGG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.43
Consensus pattern (31 bp):
ATTTTAGTCACTCTAGTTAGATAAGTTATCA
Found at i:13300754 original size:9 final size:9
Alignment explanation
Indices: 13300733--13300766 Score: 52
Period size: 8 Copynumber: 3.8 Consensus size: 9
13300723 TATATTTTAA
13300733 TTTTAATACT
1 TTTTAATA-T
13300743 TTTTAATA-
1 TTTTAATAT
13300751 TTTTAATAT
1 TTTTAATAT
13300760 TTTTAAT
1 TTTTAAT
13300767 TAAAATAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.35
9 7 0.30
10 8 0.35
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (9 bp):
TTTTAATAT
Found at i:13300755 original size:18 final size:17
Alignment explanation
Indices: 13300732--13300766 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
13300722 ATATATTTTA
13300732 ATTTTAATACTTTTTAAT
1 ATTTTAATA-TTTTTAAT
13300750 ATTTTAATATTTTTAAT
1 ATTTTAATATTTTTAAT
13300767 TAAAATAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (17 bp):
ATTTTAATATTTTTAAT
Found at i:13310360 original size:4 final size:4
Alignment explanation
Indices: 13310353--13310377 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
13310343 CATAAATTTA
13310353 TTTG TTTG TTTG TTTG TTTG TTTG T
1 TTTG TTTG TTTG TTTG TTTG TTTG T
13310378 AGGATAAGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.24, T:0.76
Consensus pattern (4 bp):
TTTG
Found at i:13316534 original size:24 final size:24
Alignment explanation
Indices: 13316489--13316565 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 24
13316479 AATTCGTTGT
* *
13316489 TATTTTTTATCATATTTATTCTTTA
1 TATTGTTTAT-ATATTTTTTCTTTA
*
13316514 TATTGTATTAT-TATTTTTTCTATA
1 TATTGT-TTATATATTTTTTCTTTA
**
13316538 T-TTGTTTATATATATTTAACTTTA
1 TATTGTTTATATAT-TTTTTCTTTA
13316562 TATT
1 TATT
13316566 CTATGAAAGT
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
22 4 0.10
23 7 0.17
24 20 0.48
25 7 0.17
26 4 0.10
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.66
Consensus pattern (24 bp):
TATTGTTTATATATTTTTTCTTTA
Found at i:13332194 original size:13 final size:13
Alignment explanation
Indices: 13332176--13332202 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
13332166 CAAGCCCCAC
13332176 CCTTTATATTTTT
1 CCTTTATATTTTT
13332189 CCTTTATATTTTT
1 CCTTTATATTTTT
13332202 C
1 C
13332203 AGCAACTAAG
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:0.19, G:0.00, T:0.67
Consensus pattern (13 bp):
CCTTTATATTTTT
Found at i:13334130 original size:39 final size:39
Alignment explanation
Indices: 13334087--13334225 Score: 181
Period size: 39 Copynumber: 3.6 Consensus size: 39
13334077 CATATTCACT
* *
13334087 TTTAAACATATATCACATTACACATATAATCACATAGA-A
1 TTTAAACATATATCACAATACTCATATAATCACATA-ACA
* * *
13334126 TTTAAGCATATACCACAATACTCATATAATTACATAACA
1 TTTAAACATATATCACAATACTCATATAATCACATAACA
* * *
13334165 TTTAAGCATATATCACAAAACTCATGTAATCACATAACA
1 TTTAAACATATATCACAATACTCATATAATCACATAACA
*
13334204 TTCAAACATATATCACAATACT
1 TTTAAACATATATCACAATACT
13334226 AAAAAACATG
Statistics
Matches: 87, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
38 1 0.01
39 86 0.99
ACGTcount: A:0.47, C:0.20, G:0.03, T:0.30
Consensus pattern (39 bp):
TTTAAACATATATCACAATACTCATATAATCACATAACA
Found at i:13342863 original size:5 final size:5
Alignment explanation
Indices: 13342855--13342879 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
13342845 TTCATTTTCA
13342855 TTATT TTATT TTATT TTATT TTATT
1 TTATT TTATT TTATT TTATT TTATT
13342880 CAGTTACTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTATT
Found at i:13346495 original size:30 final size:30
Alignment explanation
Indices: 13346460--13346528 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 30
13346450 TAATTTGTGA
* * *
13346460 AAATTGAAATAAATTTAATATTCATGTATC
1 AAATTGAAATAAAATTAAAATTCATATATC
* *
13346490 AAATTG-AGTAAAATTAAAATTTATATATC
1 AAATTGAAATAAAATTAAAATTCATATATC
13346519 AAATT-AAATA
1 AAATTGAAATA
13346529 TTAAATCATA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
29 26 0.81
30 6 0.19
ACGTcount: A:0.52, C:0.04, G:0.06, T:0.38
Consensus pattern (30 bp):
AAATTGAAATAAAATTAAAATTCATATATC
Found at i:13351657 original size:233 final size:232
Alignment explanation
Indices: 13351250--13351717 Score: 855
Period size: 233 Copynumber: 2.0 Consensus size: 232
13351240 ATGAAATATT
*
13351250 AATGCATATTGGATATTCATGAATATTGATTAACTACTGCAGATATAATGGTGCATAATGGTATT
1 AATGCATATTGGATATTCATGAATATTGATTAACTACTGCAGATATAATGATGCATAATGGTATT
*
13351315 TGTTTCTGTAAATTACTGATTTGCTTCAATTTGTTTCGGTGTTAAATAGTGTACTTGTTATTCGT
66 TGTTTCTGTAAATTACTGATTCGCTTCAATTTGTTTCGGTGTTAAATAGTGTACTTGTTATTCGT
* *
13351380 CTGAAGGTGTCTTGATTCTTTCTCCATTTATGAAGTTTATTTAGAATAGCTTACTTGTCCAATGC
131 CTGAAAGTGTCTTGATTCGTTCTCCATTTATGAAGTTTATTTAGAATAGCTTACTTGTCCAATGC
13351445 CTCAAGGAACTTCAGCTTTCTGATTTCAAAATAAAATA
196 CTCAAGGAACTTCAGCTTTCTGATTTCAAAAT-AAATA
*
13351483 AATGCATATTGGATATTCATGAATATTGATTAACTACTGTAGATATAATGATGCATAATGGTATT
1 AATGCATATTGGATATTCATGAATATTGATTAACTACTGCAGATATAATGATGCATAATGGTATT
*
13351548 TGTTTCTGTAAATTACTGATTCGCTTCAATTTGTTTCGGTGTTAAATTGTGTACTTGTTATTCGT
66 TGTTTCTGTAAATTACTGATTCGCTTCAATTTGTTTCGGTGTTAAATAGTGTACTTGTTATTCGT
*
13351613 CTGAAAGTGTCTTGATTCGTTCTCTATTTATGAAGTTTATTTAGAATAGCTTACTTGTCCAATGC
131 CTGAAAGTGTCTTGATTCGTTCTCCATTTATGAAGTTTATTTAGAATAGCTTACTTGTCCAATGC
*
13351678 CTCAAGGAACTTCAGCTTTCTTATTTCAAAATAAATA
196 CTCAAGGAACTTCAGCTTTCTGATTTCAAAATAAATA
13351715 AAT
1 AAT
13351718 CTTTATTTTT
Statistics
Matches: 227, Mismatches: 8, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
232 8 0.04
233 219 0.96
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (232 bp):
AATGCATATTGGATATTCATGAATATTGATTAACTACTGCAGATATAATGATGCATAATGGTATT
TGTTTCTGTAAATTACTGATTCGCTTCAATTTGTTTCGGTGTTAAATAGTGTACTTGTTATTCGT
CTGAAAGTGTCTTGATTCGTTCTCCATTTATGAAGTTTATTTAGAATAGCTTACTTGTCCAATGC
CTCAAGGAACTTCAGCTTTCTGATTTCAAAATAAATA
Found at i:13352845 original size:34 final size:35
Alignment explanation
Indices: 13352787--13352853 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
13352777 CAAACACTAG
*
13352787 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAATATTTTCCAGAAAATCATTTTACAGAAAAGT
* *
13352822 AAAATATTTTTCA-AAAATCATTTTACGGAAAA
1 AAAATATTTTCCAGAAAATCATTTTACAGAAAA
13352854 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.48, C:0.10, G:0.07, T:0.34
Consensus pattern (35 bp):
AAAATATTTTCCAGAAAATCATTTTACAGAAAAGT
Found at i:13353939 original size:16 final size:16
Alignment explanation
Indices: 13353918--13353948 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13353908 ATATTAGTGT
*
13353918 TATTTAATTTTAAAAA
1 TATTTAATATTAAAAA
13353934 TATTTAATATTAAAA
1 TATTTAATATTAAAA
13353949 TCATACAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TATTTAATATTAAAAA
Found at i:13355921 original size:17 final size:17
Alignment explanation
Indices: 13355872--13355921 Score: 55
Period size: 20 Copynumber: 2.7 Consensus size: 17
13355862 CTGAAATCTT
13355872 TTTATGAGGTATCAATAC
1 TTTA-GAGGTATCAATAC
*
13355890 TTTGGGAAGGGTATCAATAC
1 TTT-AG-A-GGTATCAATAC
13355910 TTTAGAGGTATC
1 TTTAGAGGTATC
13355922 GATCCTATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
17 6 0.22
18 5 0.19
19 2 0.07
20 14 0.52
ACGTcount: A:0.30, C:0.10, G:0.24, T:0.36
Consensus pattern (17 bp):
TTTAGAGGTATCAATAC
Found at i:13357772 original size:2 final size:2
Alignment explanation
Indices: 13357767--13357794 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
13357757 ATATATATAT
13357767 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
13357795 GAAGGGTGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:13362315 original size:20 final size:20
Alignment explanation
Indices: 13362292--13362346 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
13362282 TCAAAGGTCG
13362292 AGTATCGATACTTTGAAAAA
1 AGTATCGATACTTTGAAAAA
* * **
13362312 AGTATAGATACTTAGAGCAA
1 AGTATCGATACTTTGAAAAA
13362332 AGTATCGATA-TTTGA
1 AGTATCGATACTTTGA
13362347 GGTATTTTTC
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
19 4 0.14
20 25 0.86
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.31
Consensus pattern (20 bp):
AGTATCGATACTTTGAAAAA
Found at i:13363659 original size:29 final size:29
Alignment explanation
Indices: 13363590--13363646 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
13363580 TTAAATTTGT
* *
13363590 CGAAATAGATCAGGTATTTTATTATTTAC
1 CGAAATAGACCCGGTATTTTATTATTTAC
13363619 CGAAATAGACCCGGTATTTTATTATTTA
1 CGAAATAGACCCGGTATTTTATTATTTA
13363647 TCGGAATGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.40
Consensus pattern (29 bp):
CGAAATAGACCCGGTATTTTATTATTTAC
Found at i:13363775 original size:40 final size:40
Alignment explanation
Indices: 13363720--13363797 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
13363710 CATGTCAGGG
* * *
13363720 GACGTGTCAGCAAATCGCGTCCACGTCAGCGCGGTTTGCT
1 GACGTGACAGAAAATCGCGTCCACGTAAGCGCGGTTTGCT
*
13363760 GACGTGACAGAAAATCGCGTCCACGTAATCGCGGTTTG
1 GACGTGACAGAAAATCGCGTCCACGTAAGCGCGGTTTG
13363798 TGTCCACATC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.22, C:0.27, G:0.29, T:0.22
Consensus pattern (40 bp):
GACGTGACAGAAAATCGCGTCCACGTAAGCGCGGTTTGCT
Found at i:13364003 original size:11 final size:12
Alignment explanation
Indices: 13363982--13364046 Score: 68
Period size: 11 Copynumber: 5.8 Consensus size: 12
13363972 AACTAATCCT
13363982 CTCTCAAATTTC
1 CTCTCAAATTTC
13363994 CTCT-AAATTTC
1 CTCTCAAATTTC
* *
13364005 CTCTC-ATTTTG
1 CTCTCAAATTTC
13364016 CTCTCAAA-TTC
1 CTCTCAAATTTC
13364027 CT-TCCAAATTT-
1 CTCT-CAAATTTC
13364038 CTCTCAAAT
1 CTCTCAAAT
13364047 CCATATTTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 11
0.75 0.07 0.19
Matches are distributed among these distances:
10 1 0.02
11 35 0.80
12 8 0.18
ACGTcount: A:0.25, C:0.31, G:0.02, T:0.43
Consensus pattern (12 bp):
CTCTCAAATTTC
Found at i:13364067 original size:51 final size:51
Alignment explanation
Indices: 13364006--13364105 Score: 148
Period size: 51 Copynumber: 2.0 Consensus size: 51
13363996 CTAAATTTCC
*
13364006 TCTCATTTTGCTCTCAAATTCCT-TCCAAATTTCTCTCAAATCCATATTTAA
1 TCTCAATTTGCTCTCAAATTCCTCT-CAAATTTCTCTCAAATCCATATTTAA
* * *
13364057 TCTCAATTTGCTCTCAAATTCCTCTTAAATTTCTCTTAAATCCCTATTT
1 TCTCAATTTGCTCTCAAATTCCTCTCAAATTTCTCTCAAATCCATATTT
13364106 TTAAATAATT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 43 0.98
52 1 0.02
ACGTcount: A:0.26, C:0.27, G:0.02, T:0.45
Consensus pattern (51 bp):
TCTCAATTTGCTCTCAAATTCCTCTCAAATTTCTCTCAAATCCATATTTAA
Found at i:13364316 original size:19 final size:19
Alignment explanation
Indices: 13364292--13364334 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
13364282 AATTTTCGAG
13364292 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
13364311 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
13364330 -ATATG
1 GATATG
13364335 ATATATACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:13364346 original size:25 final size:23
Alignment explanation
Indices: 13364293--13364381 Score: 91
Period size: 21 Copynumber: 4.0 Consensus size: 23
13364283 ATTTTCGAGG
*
13364293 ATATGCAATCTTAG--ATATG--
1 ATATACAATCTTAGAAATATGAT
*
13364312 ATATGCAATCTTAGATATATATGAT
1 ATATACAATCTTAGA-A-ATATGAT
13364337 ATATACAATCTTAG--ATATGAT
1 ATATACAATCTTAGAAATATGAT
13364358 ATATACAATCTTAGAAGATATGAT
1 ATATACAATCTTAGAA-ATATGAT
13364382 TTTGTAATAT
Statistics
Matches: 60, Mismatches: 1, Indels: 13
0.81 0.01 0.18
Matches are distributed among these distances:
19 14 0.23
21 21 0.35
23 5 0.08
24 7 0.12
25 13 0.22
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.37
Consensus pattern (23 bp):
ATATACAATCTTAGAAATATGAT
Found at i:13364351 original size:44 final size:44
Alignment explanation
Indices: 13364293--13364381 Score: 126
Period size: 44 Copynumber: 2.0 Consensus size: 44
13364283 ATTTTCGAGG
* * *
13364293 ATATGCAATCTTAGATATG-ATATGCAATCTTAGATATATATGAT
1 ATATACAATCTTAGATATGAATATACAATCTTAGA-AGATATGAT
13364337 ATATACAATCTTAGATATGATATATACAATCTTAGAAGATATGAT
1 ATATACAATCTTAGATATGA-ATATACAATCTTAGAAGATATGAT
13364382 TTTGTAATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
44 18 0.45
45 8 0.20
46 14 0.35
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.37
Consensus pattern (44 bp):
ATATACAATCTTAGATATGAATATACAATCTTAGAAGATATGAT
Found at i:13364378 original size:19 final size:21
Alignment explanation
Indices: 13364293--13364372 Score: 92
Period size: 21 Copynumber: 3.7 Consensus size: 21
13364283 ATTTTCGAGG
*
13364293 ATATGCAATCTTAGATATG--
1 ATATACAATCTTAGATATGAT
*
13364312 ATATGCAATCTTAGATATATATGAT
1 ATATACAATCTTAG----ATATGAT
13364337 ATATACAATCTTAGATATGAT
1 ATATACAATCTTAGATATGAT
13364358 ATATACAATCTTAGA
1 ATATACAATCTTAGA
13364373 AGATATGATT
Statistics
Matches: 54, Mismatches: 1, Indels: 10
0.83 0.02 0.15
Matches are distributed among these distances:
19 14 0.26
21 22 0.41
23 5 0.09
25 13 0.24
ACGTcount: A:0.41, C:0.10, G:0.11, T:0.38
Consensus pattern (21 bp):
ATATACAATCTTAGATATGAT
Found at i:13364595 original size:19 final size:21
Alignment explanation
Indices: 13364571--13364609 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
13364561 ACTGTTTTCT
*
13364571 TTTTTTTCTT-TTT-CGATTA
1 TTTTTTACTTATTTACGATTA
13364590 TTTTTTACTTATTTACGATT
1 TTTTTTACTTATTTACGATT
13364610 TTAAAAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTTACTTATTTACGATTA
Found at i:13364838 original size:16 final size:16
Alignment explanation
Indices: 13364817--13364868 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
13364807 TTTAGTCTAT
*
13364817 TTTATTAATTTTGTTA
1 TTTATTAATTTTATTA
*
13364833 TTTATTATTTTTATTA
1 TTTATTAATTTTATTA
13364849 TTATATTATATTATTATTA
1 TT-TATTA-ATT-TTATTA
13364868 T
1 T
13364869 ACCTACATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
16 16 0.53
17 5 0.17
18 2 0.07
19 7 0.23
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (16 bp):
TTTATTAATTTTATTA
Found at i:13364846 original size:25 final size:25
Alignment explanation
Indices: 13364816--13364866 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
13364806 TTTTAGTCTA
* *
13364816 TTTTATTAATTTTGTTAT-TTATTAT
1 TTTTATT-ATTATATTATATTATTAT
13364841 TTTTATTATTATATTATATTATTAT
1 TTTTATTATTATATTATATTATTAT
13364866 T
1 T
13364867 ATACCTACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 8 0.35
25 15 0.65
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (25 bp):
TTTTATTATTATATTATATTATTAT
Found at i:13364852 original size:19 final size:19
Alignment explanation
Indices: 13364830--13364868 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
13364820 ATTAATTTTG
13364830 TTATT-TATTAT-TT-TTA
1 TTATTATATTATATTATTA
13364846 TTATTATATTATATTATTA
1 TTATTATATTATATTATTA
13364865 TTAT
1 TTAT
13364869 ACCTACATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 5 0.25
17 6 0.30
18 2 0.10
19 7 0.35
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
TTATTATATTATATTATTA
Found at i:13369289 original size:7 final size:8
Alignment explanation
Indices: 13369265--13369290 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
13369255 AATGATGACG
13369265 AAATGAAA
1 AAATGAAA
13369273 AAATGAAA
1 AAATGAAA
13369281 AAATGAAA
1 AAATGAAA
13369289 AA
1 AA
13369291 GTAAAATGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.12
Consensus pattern (8 bp):
AAATGAAA
Found at i:13376414 original size:22 final size:22
Alignment explanation
Indices: 13376329--13377233 Score: 499
Period size: 22 Copynumber: 41.0 Consensus size: 22
13376319 TTTAATTGAC
* *
13376329 AAACCTTAAACCCTTAACATAA
1 AAACCCTAAACCCTTAACTTAA
*
13376351 AAACCCTAACCCTAACCCTAAACTTAA
1 AAACCCT-A----AACCCTTAACTTAA
* *
13376378 AAACTCT-AACTCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
13376399 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* * **
13376421 ATACCCT-AACCCTTTTTATCAAAAA
1 AAACCCTAAACCC---TTAAC-TTAA
13376446 AATACCCT-AACCCTTAACTTAA
1 AA-ACCCTAAACCCTTAACTTAA
13376468 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
13376490 AAATCCTAAACCCCTAAAACCTT--
1 AAACCCTAAA-CCCT-TAA-CTTAA
* *****
13376513 AAACCTTTAAATTAAAAACTCT--
1 AAACC-CTAAACCCTTAACT-TAA
*
13376535 AAACCCTAAAACCCTAAATCCATAAATTAA
1 AAACCCT-AAACCC----T---TAACTTAA
* * *
13376565 AAA-TCTTAACCATTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
13376586 AAACCTTAAACCCTTAACATAA
1 AAACCCTAAACCCTTAACTTAA
* * *
13376608 AAACCCTAAAACTTTAAATTAA
1 AAACCCTAAACCCTTAACTTAA
* * *
13376630 AAGCCCT-AACCCTCAACTTTA
1 AAACCCTAAACCCTTAACTTAA
*
13376651 AAACCCTAAACCCTTAAATTAA
1 AAACCCTAAACCCTTAACTTAA
* * *
13376673 AAACCCTAAGCACTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
13376695 AAACCCTAAA-CCTTAAACCCTTAA
1 AAACCCTAAACCCTT-AA--CTTAA
*** *
13376719 CTTAAAAAATGCAACCCTTAACTTAA
1 ---AAACCCT-AAACCCTTAACTTAA
* *
13376745 AAACCCTAAACCTTTAAATTAA
1 AAACCCTAAACCCTTAACTTAA
** * *
13376767 AAACTGT-AACCTTTAAATTAA
1 AAACCCTAAACCCTTAACTTAA
*
13376788 AAACTCTAAA-CC----C-T-A
1 AAACCCTAAACCCTTAACTTAA
* **
13376803 AACCCCTAAACTTTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* * *
13376825 GAACCCTAAACCATTAAATTAA
1 AAACCCTAAACCCTTAACTTAA
*
13376847 AAA-CCTAAAACCCTAAAACCTT-A
1 AAACCCT-AAACCCT-TAA-CTTAA
* *
13376870 AAACCCTAAA-TCTATAAATTAA
1 AAACCCTAAACCCT-TAACTTAA
** *
13376892 AAACCCT-AACTTTTAACCTAA
1 AAACCCTAAACCCTTAACTTAA
*
13376913 AAACCCTAAACCTTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
13376935 AAACCCTAAACCCTTAAATTAA
1 AAACCCTAAACCCTTAACTTAA
*
13376957 AAACCCT-AACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
*
13376978 AAACCCTAAACCCTTAATTTAA
1 AAACCCTAAACCCTTAACTTAA
* * *
13377000 AAATCAT-AACCCTTAAATTAA
1 AAACCCTAAACCCTTAACTTAA
* *
13377021 AAACCCT-AACACTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
*
13377042 AAACCTTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* * * * *
13377064 AAATCGT-AACCTTTAAATTGA
1 AAACCCTAAACCCTTAACTTAA
* * *
13377085 AAACTCT-AACCTTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
*
13377106 AAACCTTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
13377128 AAACCGC--AGCCCTTAAATTAA
1 AAACC-CTAAACCCTTAACTTAA
*
13377149 AAACCCT-AACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
* * * *
13377170 AAATCGT-AACCCTTAAATAAA
1 AAACCCTAAACCCTTAACTTAA
* *
13377191 AAACCC-AGACACTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
13377212 AAACCCT-AGCCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
13377233 A
1 A
13377234 TATAATTTGA
Statistics
Matches: 675, Mismatches: 149, Indels: 119
0.72 0.16 0.13
Matches are distributed among these distances:
15 9 0.01
16 1 0.00
20 2 0.00
21 263 0.39
22 290 0.43
23 26 0.04
24 20 0.03
25 6 0.01
26 15 0.02
27 22 0.03
28 9 0.01
29 9 0.01
30 3 0.00
ACGTcount: A:0.46, C:0.27, G:0.01, T:0.26
Consensus pattern (22 bp):
AAACCCTAAACCCTTAACTTAA
Found at i:13376418 original size:43 final size:43
Alignment explanation
Indices: 13376358--13377233 Score: 544
Period size: 43 Copynumber: 20.5 Consensus size: 43
13376348 TAAAAACCCT
* * *
13376358 AACCCT-AACCCTAAACTTAAAAACTCTAACTCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAA
* * **
13376400 AACCCTAAACCCTTAACTTAAATACCCTAACCCTTTTTATCAAAAAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAACCC---TTAAC-TTAAA
13376447 ATACCCT-AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
1 A-ACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAAA
* * * *
13376491 AATCCTAAACCC----C-T-AAAACCTTAAACCTTTAAATTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAAA
* * * *
13376529 AACTCTAAA-CC----C-T-AAAACCCTAAATCCATAAATTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAAA
* * * * *
13376566 AA-TCTTAACCATTAACTTAAAAACCTTAAACCCTTAACATAAA
1 AACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAAA
* * * * * *
13376609 AACCCTAAAACTTTAAATTAAAAGCCCTAACCCTCAACTTTAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAA
* *
13376652 AACCCTAAACCCTTAAATTAAAAACCCTAAGCACTTAACTTTAAAACCCTA
1 AACCCTAAACCCTTAACTTAAAAACCCTAA-CCCTTAAC-TT--AA----A
* **
13376703 AACCTTAAACCCTTAACTTAAAAAATGC-AACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTT-AAAAACCCTAACCCTTAACTTAAA
* * ** * *
13376746 AACCCTAAACCTTTAAATTAAAAACTGTAACCTTTAAATTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAA
* * ** *
13376789 AACTCTAAA-CC----C-T-AAACCCCTAAACTTTTAACTTAAG
1 AACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAAA
* * *
13376826 AACCCTAAACCATTAAATTAAAAA-CCTAAAACCCTAAAACCTT-AA
1 AACCCTAAACCCTTAACTTAAAAACCCT--AACCCT-TAA-CTTAAA
* * ** *
13376871 AACCCTAAA-TCTATAAATTAAAAACCCTAACTTTTAACCTAAA
1 AACCCTAAACCCT-TAACTTAAAAACCCTAACCCTTAACTTAAA
* *
13376914 AACCCTAAACCTTTAACTTAAAAACCCTAAACCCTTAAATTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAAA
* *
13376958 AACCCT-AACCCTTAACTTTAAAACCCTAAACCCTTAATTTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAAA
* * * * *
13377001 AATCAT-AACCCTTAAATTAAAAACCCTAACACTTAACTTTAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAA
* * * * * *
13377043 AACCTTAAACCCTTAACTTAAAAATCGTAACCTTTAAATTGAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAA
* * * *
13377086 AACTCT-AACCTTTAACTTTAAAACCTTAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAAA
* * *
13377129 AACCGC--AGCCCTTAAATTAAAAACCCTAACCCTTAACTTTAA
1 AACC-CTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAA
* * * * *
13377171 AATCGT-AACCCTTAAATAAAAAACCC-AGACACTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCTA-ACCCTTAACTTAAA
*
13377213 AACCCT-AGCCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
13377234 TATAATTTGA
Statistics
Matches: 654, Mismatches: 133, Indels: 94
0.74 0.15 0.11
Matches are distributed among these distances:
36 10 0.02
37 48 0.07
38 29 0.04
39 1 0.00
40 1 0.00
41 2 0.00
42 111 0.17
43 276 0.42
44 65 0.10
45 29 0.04
46 10 0.02
47 27 0.04
48 10 0.02
49 2 0.00
50 7 0.01
51 20 0.03
52 6 0.01
ACGTcount: A:0.46, C:0.27, G:0.01, T:0.26
Consensus pattern (43 bp):
AACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAA
Found at i:13376470 original size:26 final size:26
Alignment explanation
Indices: 13376419--13376492 Score: 63
Period size: 26 Copynumber: 3.0 Consensus size: 26
13376409 CCCTTAACTT
*
13376419 AAATACCCTAACCCTT--TTTATCAAAA
1 AAATACCCTAACCCTTAACTTA--AAAA
13376445 AAATACCCTAACCCTTAACTT----A
1 AAATACCCTAACCCTTAACTTAAAAA
13376467 AAA-ACCCTAAACCCTTAACTTAAAAA
1 AAATACCCT-AACCCTTAACTTAAAAA
13376493 TCCTAAACCC
Statistics
Matches: 40, Mismatches: 1, Indels: 14
0.73 0.02 0.25
Matches are distributed among these distances:
21 5 0.12
22 16 0.40
26 17 0.43
28 2 0.05
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.26
Consensus pattern (26 bp):
AAATACCCTAACCCTTAACTTAAAAA
Found at i:13376510 original size:38 final size:38
Alignment explanation
Indices: 13376467--13376570 Score: 140
Period size: 38 Copynumber: 2.8 Consensus size: 38
13376457 CCTTAACTTA
*
13376467 AAAACCCTAAACCCTTAACTTAAAAATC-CTAAACCCCT
1 AAAACCCTAAACCCTTAAATTAAAAATCTCTAAA-CCCT
* *
13376505 AAAACCTTAAACCTTTAAATTAAAAA-CTCTAAACCCT
1 AAAACCCTAAACCCTTAAATTAAAAATCTCTAAACCCT
* *
13376542 AAAACCCTAAATCCATAAATTAAAAATCT
1 AAAACCCTAAACCCTTAAATTAAAAATCT
13376571 TAACCATTAA
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
37 27 0.47
38 30 0.53
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (38 bp):
AAAACCCTAAACCCTTAAATTAAAAATCTCTAAACCCT
Found at i:13376613 original size:65 final size:65
Alignment explanation
Indices: 13376542--13377196 Score: 315
Period size: 64 Copynumber: 10.1 Consensus size: 65
13376532 TCTAAACCCT
* * * * *
13376542 AAAACCCTAAATCCATAAATTAAAAATCTTAACCATTAACTTAAAAACCTTAAACCCTTAACA-T
1 AAAACCCTAAAACCATAAATTAAAAACCCTAACCATCAACTTAAAAACCCTAAACCCTTAA-ATT
13376606 A
65 A
** * * *
13376607 AAAACCCTAAAACTTTAAATTAAAAGCCCTAACCCTCAACTTTAAAACCCTAAACCCTTAAATTA
1 AAAACCCTAAAACCATAAATTAAAAACCCTAACCATCAACTTAAAAACCCTAAACCCTTAAATTA
* * * * * * *** *
13376672 AAAACCCT-AAGCACTTAACTTTAAAACCCTAAACCTTAAACCCTTAACTTAAAAAATGCAACCC
1 AAAACCCTAAAAC-CATAAATTAAAAACCCT-AACCATCAA--CTTAA---AAACCCT-AAACCC
*
13376736 TTAACTTA
58 TTAAATTA
* ** * * * *
13376744 AAAACCCT-AAACCTTTAAATTAAAAACTGTAACCTTTAAATTAAAAACTCTAAACCC------T
1 AAAACCCTAAAACC-ATAAATTAAAAACCCTAACCATCAACTTAAAAACCCTAAACCCTTAAATT
13376802 -
65 A
* ** * * * * *
13376802 AAACCCCT-AAACTTTTAACTTAAGAACCCTAAACCATTAAATTAAAAA-CCTAAAACCCTAAAA
1 AAAACCCTAAAAC-CATAAATTAAAAACCCT-AACCATCAACTTAAAAACCCT-AAACCCTTAAA
13376865 CCTT-
63 --TTA
* * ** * * * *
13376869 AAAACCCTAAATCTATAAATTAAAAACCCTAACTTTTAACCTAAAAACCCTAAACCTTTAACTTA
1 AAAACCCTAAAACCATAAATTAAAAACCCTAACCATCAACTTAAAAACCCTAAACCCTTAAATTA
* * * * * *
13376934 AAAACCCTAAACCCTTAAATTAAAAACCCTAACCCTTAACTTTAAAACCCTAAACCCTTAATTTA
1 AAAACCCTAAAACCATAAATTAAAAACCCTAACCATCAACTTAAAAACCCTAAACCCTTAAATTA
* * * * * * * *
13376999 AAAATCAT-AACCCTTAAATTAAAAACCCTAA-CACTTAACTTTAAAACCTTAAACCCTTAACTT
1 AAAACCCTAAAACCATAAATTAAAAACCCTAACCA-TCAACTTAAAAACCCTAAACCCTTAAATT
13377062 A
65 A
* * * * * * * * * *
13377063 AAAATCGT--AACCTTTAAATTGAAAACTCTAACCTTTAACTTTAAAACCTTAAACCCTTAACTT
1 AAAACCCTAAAACC-ATAAATTAAAAACCCTAACCATCAACTTAAAAACCCTAAACCCTTAAATT
13377126 A
65 A
** * * * * * * *
13377127 AAAACCGC--AGCCCTTAAATTAAAAACCCTAACCCTTAACTTTAAAATCGT-AACCCTTAAATA
1 AAAACC-CTAAAACCATAAATTAAAAACCCTAACCATCAACTTAAAAACCCTAAACCCTTAAATT
13377189 A
65 A
13377190 AAAACCC
1 AAAACCC
13377197 AGACACTTAA
Statistics
Matches: 477, Mismatches: 84, Indels: 61
0.77 0.14 0.10
Matches are distributed among these distances:
58 25 0.05
59 23 0.05
62 1 0.00
63 21 0.04
64 147 0.31
65 144 0.30
66 32 0.07
67 25 0.05
68 7 0.01
69 4 0.01
71 13 0.03
72 35 0.07
ACGTcount: A:0.46, C:0.26, G:0.02, T:0.26
Consensus pattern (65 bp):
AAAACCCTAAAACCATAAATTAAAAACCCTAACCATCAACTTAAAAACCCTAAACCCTTAAATTA
Found at i:13376858 original size:7 final size:8
Alignment explanation
Indices: 13376844--13376879 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
13376834 ACCATTAAAT
*
13376844 TAAAAACC
1 TAAAACCC
13376852 TAAAACCC
1 TAAAACCC
*
13376860 TAAAACCT
1 TAAAACCC
13376868 TAAAACCC
1 TAAAACCC
13376876 TAAA
1 TAAA
13376880 TCTATAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.56, C:0.28, G:0.00, T:0.17
Consensus pattern (8 bp):
TAAAACCC
Found at i:13376887 original size:16 final size:16
Alignment explanation
Indices: 13376846--13376879 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
13376836 CATTAAATTA
13376846 AAAACC-TAAAACCCT
1 AAAACCTTAAAACCCT
13376861 AAAACCTTAAAACCCT
1 AAAACCTTAAAACCCT
13376877 AAA
1 AAA
13376880 TCTATAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (16 bp):
AAAACCTTAAAACCCT
Found at i:13380946 original size:126 final size:126
Alignment explanation
Indices: 13380696--13381385 Score: 854
Period size: 126 Copynumber: 5.5 Consensus size: 126
13380686 AACATGCTAT
* * * * * *
13380696 TGTAGCAAAAGCGTGACCACGTGGGTGCGATTTCACAAATTCTTCTCATATAGCATCCTGCTAGA
1 TGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGA
* * *
13380761 A--G-TGATTTTATACTATTTGCTAAGAAACGTCAAGTCGAAATTATTTTTCTAGGACCTAC
66 AGCGTTG-TTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGACCTAC
*
13380820 TATAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCA-AATAGCATCCTGCTTG
1 TGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTGCTTG
* * * * *
13380884 CAGCGTTGTTTTATACTATTTGCTCAGAAACATTAAGTCGAAATTATTTTTCTAGGACCTAC
65 AAGCGTTGTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGACCTAC
* * * ** **
13380946 TGCAGCAAAAGCGTGTCCACGTGGGCATGATTTCACAAATTCTTCTCA-AATAGCATATTGCTTG
1 TGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTGCTTG
* * *
13381010 CAGCGTTGTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATT-TTTTTTCAGGACCTAC
65 AAGCGTTGTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGACCTAC
* * * *
13381071 TGTAGCAAAAGTGCGTCCATGTGGGCGCGATTTCACAAATTCTTTTCATAAAGCATCCTGCTTGA
1 TGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGA
* * * * *
13381136 AGCATTTTTTTAAACTATTTGCTCAGAAACATCAACTCGAAATTATTTCTTCCAGGACCAAC
66 AGCGTTGTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTCCAGGACCTAC
* ** *
13381198 TGTAGCAAAAGCGCGTCCACAAGGGCATGATTTCACAAATTCTTCTCATAAAGCATCCTACTTGA
1 TGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGA
* * *
13381263 AGCATTTTTTTA-ACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTCCAGGACCTAC
66 AGCGTTGTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGACCTAC
* * * * * * * *
13381323 TGTAGCAAAAGAGTGTACACGAGGGCGCGACTTCAAAAATCCTTCTGATAAATCATCCTGCTT
1 TGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTT
13381386 TGATTTTATC
Statistics
Matches: 494, Mismatches: 65, Indels: 13
0.86 0.11 0.02
Matches are distributed among these distances:
123 1 0.00
124 56 0.11
125 168 0.34
126 187 0.38
127 82 0.17
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.32
Consensus pattern (126 bp):
TGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGA
AGCGTTGTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGACCTAC
Found at i:13381521 original size:8 final size:9
Alignment explanation
Indices: 13381500--13381537 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
13381490 CTTTTTTTCC
*
13381500 AAAAACCCT
1 AAAAATCCT
13381509 AAAAATCCT
1 AAAAATCCT
*
13381518 AAAAACCCT
1 AAAAATCCT
13381527 AAAAATCCT
1 AAAAATCCT
13381536 AA
1 AA
13381538 CCCGAGAAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.58, C:0.26, G:0.00, T:0.16
Consensus pattern (9 bp):
AAAAATCCT
Found at i:13381523 original size:18 final size:18
Alignment explanation
Indices: 13381500--13381537 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
13381490 CTTTTTTTCC
13381500 AAAAACCCTAAAAATCCT
1 AAAAACCCTAAAAATCCT
13381518 AAAAACCCTAAAAATCCT
1 AAAAACCCTAAAAATCCT
13381536 AA
1 AA
13381538 CCCGAGAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.58, C:0.26, G:0.00, T:0.16
Consensus pattern (18 bp):
AAAAACCCTAAAAATCCT
Found at i:13394417 original size:26 final size:26
Alignment explanation
Indices: 13394381--13394431 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
13394371 TTAGCATTAC
* *
13394381 TTTTGAAAAGTGCTGTGGAAAAGTTA
1 TTTTGAAAAGTACTGTAGAAAAGTTA
* *
13394407 TTTTGAGAAGTACTTTAGAAAAGTT
1 TTTTGAAAAGTACTGTAGAAAAGTT
13394432 TGGTTTAGGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.35, C:0.04, G:0.24, T:0.37
Consensus pattern (26 bp):
TTTTGAAAAGTACTGTAGAAAAGTTA
Found at i:13394808 original size:20 final size:20
Alignment explanation
Indices: 13394769--13394807 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
13394759 TTTAATGGAA
13394769 AAATAATTACATAAAAATAT
1 AAATAATTACATAAAAATAT
*
13394789 AAAT-ATTATAT-AAAATAT
1 AAATAATTACATAAAAATAT
13394807 A
1 A
13394808 TTATAAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 8 0.44
19 6 0.33
20 4 0.22
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (20 bp):
AAATAATTACATAAAAATAT
Found at i:13398067 original size:13 final size:13
Alignment explanation
Indices: 13398049--13398077 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
13398039 TGGTGGCCCC
13398049 TTTTTTTTTTGTT
1 TTTTTTTTTTGTT
13398062 TTTTTTTTTTGTT
1 TTTTTTTTTTGTT
13398075 TTT
1 TTT
13398078 GCTGGGATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (13 bp):
TTTTTTTTTTGTT
Found at i:13398408 original size:55 final size:55
Alignment explanation
Indices: 13398338--13398629 Score: 289
Period size: 55 Copynumber: 5.2 Consensus size: 55
13398328 TAGATGTACT
*
13398338 ACATAACAATTGATTTAAACATATAAATAATCTATTAAAAAAAAGCAGTATTCCA
1 ACATAACAATCGATTTAAACATATAAATAATCTATTAAAAAAAAGCAGTATTCCA
* * * *
13398393 ACATAAAAATCGATTTAAACATATAAGTAATCTATTCAAAAGAAGAAGATGCGGTATTCTA
1 ACATAACAATCGATTTAAACATATAAATAATCTATT--AAA-AA-AA-A-GCAGTATTCCA
* ** * * * *
13398454 CCATAACAATCGATTTAAACATATAAGCAATCGATTTAAAAGAAGCAGTATTTCA
1 ACATAACAATCGATTTAAACATATAAATAATCTATTAAAAAAAAGCAGTATTCCA
* * * * *
13398509 ACATGACAATCAATTTAAACATATAAATAATCGATTCAAAAGAAA-CAGTATTCTA
1 ACATAACAATCGATTTAAACATATAAATAATCTATT-AAAAAAAAGCAGTATTCCA
* * * * * * *
13398564 ACATGACAATTGATTTAAACATAAAAATAATATATTCAAAAGAAGCAATATTCCA
1 ACATAACAATCGATTTAAACATATAAATAATCTATTAAAAAAAAGCAGTATTCCA
*
13398619 GCATAACAATC
1 ACATAACAATC
13398630 AATCCAATCG
Statistics
Matches: 192, Mismatches: 37, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
54 5 0.03
55 127 0.66
56 6 0.03
57 4 0.02
58 4 0.02
59 4 0.02
60 1 0.01
61 41 0.21
ACGTcount: A:0.50, C:0.14, G:0.09, T:0.27
Consensus pattern (55 bp):
ACATAACAATCGATTTAAACATATAAATAATCTATTAAAAAAAAGCAGTATTCCA
Found at i:13398546 original size:116 final size:116
Alignment explanation
Indices: 13398339--13398632 Score: 321
Period size: 116 Copynumber: 2.6 Consensus size: 116
13398329 AGATGTACTA
* * *
13398339 CATAACAATTGATTTAAACATATAAATAATCTATTAAAAAAAAGCAGTATTCCAACATAAAAATC
1 CATAACAATCGATTTAAACATATAAACAATCGATTAAAAAAAAGCAGTATTCCAACATAAAAATC
* * *
13398404 GATTTAAACATATAAGTAATCTATTCAAAAGAAGAAGATGCGGTATTCTAC
66 AATTTAAACATATAAATAATCGATTCAAAAGAAGAAGATGCGGTATTCTAC
* * * * * *
13398455 CATAACAATCGATTTAAACATATAAGCAATCGATTTAAAAGAAGCAGTATTTCAACATGACAATC
1 CATAACAATCGATTTAAACATATAAACAATCGATTAAAAAAAAGCAGTATTCCAACATAAAAATC
* *
13398520 AATTTAAACATATAAATAATCGATTC--AA-AAGAA-A--CAGTATTCTAA
66 AATTTAAACATATAAATAATCGATTCAAAAGAAGAAGATGCGGTATTCTAC
* * * * ** * * * * *
13398565 CATGACAATTGATTTAAACATAAAAATAATATATTCAAAAGAAGCAATATTCCAGCATAACAATC
1 CATAACAATCGATTTAAACATATAAACAATCGATTAAAAAAAAGCAGTATTCCAACATAAAAATC
13398630 AAT
66 AAT
13398633 CCAATCGATT
Statistics
Matches: 152, Mismatches: 26, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
110 65 0.43
112 1 0.01
113 5 0.03
114 2 0.01
116 79 0.52
ACGTcount: A:0.50, C:0.14, G:0.09, T:0.28
Consensus pattern (116 bp):
CATAACAATCGATTTAAACATATAAACAATCGATTAAAAAAAAGCAGTATTCCAACATAAAAATC
AATTTAAACATATAAATAATCGATTCAAAAGAAGAAGATGCGGTATTCTAC
Found at i:13400158 original size:30 final size:31
Alignment explanation
Indices: 13400119--13400178 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
13400109 AGAGGTGGGA
*
13400119 TGGGAAGGGAATAAAAGTTTT-AGGGAAAAAG
1 TGGGAAGGGAATAAAAATTTTGA-GGAAAAAG
*
13400150 TGGG-AGGGAGTAAAAATTTTGAGGAAAAA
1 TGGGAAGGGAATAAAAATTTTGAGGAAAAA
13400179 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.45, C:0.00, G:0.35, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTGAGGAAAAAG
Found at i:13400846 original size:20 final size:19
Alignment explanation
Indices: 13400817--13400858 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
13400807 AATCGGTTTA
*
13400817 AAATTTTTTAACTCAATTG
1 AAATTTTTTAAATCAATTG
*
13400836 AAATATTTTTAAATCGATTG
1 AAAT-TTTTTAAATCAATTG
13400856 AAA
1 AAA
13400859 AAACTGCTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (19 bp):
AAATTTTTTAAATCAATTG
Found at i:13405900 original size:33 final size:33
Alignment explanation
Indices: 13405858--13406001 Score: 103
Period size: 33 Copynumber: 4.3 Consensus size: 33
13405848 AATTGACGGA
*
13405858 TAAGACCATGACTGGGTTATGGCACTATGAACG
1 TAAGACCATGACTGGGCTATGGCACTATGAACG
** * * * * * *
13405891 TAAGACCATGGTTGGACCATGGCAGTGTTTATATG
1 TAAGACCATGACTGGGCTATGGCACT-ATGA-ACG
* * * *
13405926 TAATACCAT-AGCTGGGCTATGGCATTCTG-ATG
1 TAAGACCATGA-CTGGGCTATGGCACTATGAACG
* *
13405958 ATAAGACCATAACTGGGTTATGGCACTATGAACG
1 -TAAGACCATGACTGGGCTATGGCACTATGAACG
13405992 TAAGACCATG
1 TAAGACCATG
13406002 TTTGGACCAT
Statistics
Matches: 82, Mismatches: 23, Indels: 12
0.70 0.20 0.10
Matches are distributed among these distances:
32 3 0.04
33 52 0.63
34 6 0.07
35 21 0.26
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (33 bp):
TAAGACCATGACTGGGCTATGGCACTATGAACG
Found at i:13405991 original size:101 final size:101
Alignment explanation
Indices: 13405856--13406086 Score: 426
Period size: 101 Copynumber: 2.3 Consensus size: 101
13405846 TGAATTGACG
*
13405856 GATAAGACCATGACTGGGTTATGGCACTATGAACGTAAGACCATGGTTGGACCATGGCAGTGTTT
1 GATAAGACCATAACTGGGTTATGGCACTATGAACGTAAGACCATGGTTGGACCATGGCAGTGTTT
* *
13405921 ATATGTAATACCATAGCTGGGCTATGGCATTCTGAT
66 ATATGTAAGACCATAGCTGGGATATGGCATTCTGAT
*
13405957 GATAAGACCATAACTGGGTTATGGCACTATGAACGTAAGACCATGTTTGGACCATGGCAGTGTTT
1 GATAAGACCATAACTGGGTTATGGCACTATGAACGTAAGACCATGGTTGGACCATGGCAGTGTTT
13406022 ATATGTAAGACCATAGCTGGGATATGGCATTCTGAT
66 ATATGTAAGACCATAGCTGGGATATGGCATTCTGAT
13406058 GATAAGACCATAACTGGGTTATGGCACTA
1 GATAAGACCATAACTGGGTTATGGCACTA
13406087 CAAATGTAAA
Statistics
Matches: 126, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
101 126 1.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.28
Consensus pattern (101 bp):
GATAAGACCATAACTGGGTTATGGCACTATGAACGTAAGACCATGGTTGGACCATGGCAGTGTTT
ATATGTAAGACCATAGCTGGGATATGGCATTCTGAT
Found at i:13406069 original size:33 final size:32
Alignment explanation
Indices: 13405923--13406083 Score: 126
Period size: 33 Copynumber: 4.8 Consensus size: 32
13405913 CAGTGTTTAT
* *
13405923 ATGTAATACCATAGCTGGGCTATGGCATTCTG
1 ATGTAAGACCATAGCTGGGATATGGCATTCTG
* * * *
13405955 ATGATAAGACCATAACTGGGTTATGGCACTATG
1 ATG-TAAGACCATAGCTGGGATATGGCATTCTG
* * * * * *
13405988 AACGTAAGACCAT-GTTTGGACCATGGCAGTGTTTAT
1 -ATGTAAGACCATAGCTGGGA-TATGGCA-T-TCT-G
13406024 ATGTAAGACCATAGCTGGGATATGGCATTCTG
1 ATGTAAGACCATAGCTGGGATATGGCATTCTG
* *
13406056 ATGATAAGACCATAACTGGGTTATGGCA
1 ATG-TAAGACCATAGCTGGGATATGGCA
13406084 CTACAAATGT
Statistics
Matches: 99, Mismatches: 22, Indels: 15
0.73 0.16 0.11
Matches are distributed among these distances:
32 9 0.09
33 63 0.64
34 3 0.03
35 19 0.19
36 5 0.05
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (32 bp):
ATGTAAGACCATAGCTGGGATATGGCATTCTG
Found at i:13406174 original size:11 final size:12
Alignment explanation
Indices: 13406151--13406183 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
13406141 TTTGTTGCGA
13406151 ACTTTCGTGTTT
1 ACTTTCGTGTTT
13406163 ACTTTC-TGTTT
1 ACTTTCGTGTTT
13406174 AGCTTTCGTG
1 A-CTTTCGTG
13406184 AGCTTCTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 6 0.32
12 11 0.58
13 2 0.11
ACGTcount: A:0.09, C:0.18, G:0.18, T:0.55
Consensus pattern (12 bp):
ACTTTCGTGTTT
Found at i:13409720 original size:188 final size:186
Alignment explanation
Indices: 13409423--13409893 Score: 667
Period size: 188 Copynumber: 2.5 Consensus size: 186
13409413 TTGACAAGAT
* * * * *
13409423 GGGTTGAGGTTTGTAGAGGAAAAACACTCTAAGTAGGATGCATTGTCAGCAAAAGTACTGAAAAC
1 GGGTTGAGGTTTCTAGAGGAAAAACGCTCCAAGAAGGATGCACTGTCAGCAAAAGTACTGAAAAC
* * *
13409488 GCTACCAATTGGACGCCCTTTTCAGTACTGCTACTTCTGTGAAAATAAATTTGATGAGATGATTC
66 GCTTCCAATTGGACGCCCTTTTCAATACTGCTACTTCTGTGAAAATAAATTTGATGAGATAATTC
* * * * *
13409553 TAAAATAATATCACGGGATTCACTGG-ATGAGGTTTGTGAAAAATACCTCGAATAGTGG
131 TAAAA-AATATCACGAG-TTC-CCGGAATAAGGTTTGTGAAAAATACCCCAAATAGTGG
* *
13409611 GGGTTGAGGTTTCTAGAGCAAAAACGCTCCAAGAAGGATGTACTGTCAGCAAAAGTACTGAAAAC
1 GGGTTGAGGTTTCTAGAGGAAAAACGCTCCAAGAAGGATGCACTGTCAGCAAAAGTACTGAAAAC
* *
13409676 GCTTCCAATTGGACGCCCTTTTCAATACTGTTGCTTCTGTGAAAATAAATTTGATGAGATAATTC
66 GCTTCCAATTGGACGCCCTTTTCAATACTGCTACTTCTGTGAAAATAAATTTGATGAGATAATTC
* * * *
13409741 TGAAAAGTATCCCGAGTTCCCGGAATAAGGTTTGTGAAAAGTACCCCAAATAGTGG
131 TAAAAAATATCACGAGTTCCCGGAATAAGGTTTGTGAAAAATACCCCAAATAGTGG
* * *
13409797 TGGTTGAGGTTTCTATAGGAAAAACGCTCCAA-ACAGGATGCACTGTCAGCAAAAGTACTAAAAA
1 GGGTTGAGGTTTCTAGAGGAAAAACGCTCCAAGA-AGGATGCACTGTCAGCAAAAGTACTGAAAA
*
13409861 CGCTTCCATTTGGACGCCCTTTTCAATACTGCT
65 CGCTTCCAATTGGACGCCCTTTTCAATACTGCT
13409894 TTTGATAGTG
Statistics
Matches: 253, Mismatches: 28, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
185 4 0.02
186 119 0.47
187 8 0.03
188 122 0.48
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (186 bp):
GGGTTGAGGTTTCTAGAGGAAAAACGCTCCAAGAAGGATGCACTGTCAGCAAAAGTACTGAAAAC
GCTTCCAATTGGACGCCCTTTTCAATACTGCTACTTCTGTGAAAATAAATTTGATGAGATAATTC
TAAAAAATATCACGAGTTCCCGGAATAAGGTTTGTGAAAAATACCCCAAATAGTGG
Found at i:13410109 original size:13 final size:13
Alignment explanation
Indices: 13410093--13410117 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13410083 GTATAAGTTG
13410093 ATTTTTCGTGTTA
1 ATTTTTCGTGTTA
13410106 ATTTTTCGTGTT
1 ATTTTTCGTGTT
13410118 TTGAATTTCT
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:0.12, C:0.08, G:0.16, T:0.64
Consensus pattern (13 bp):
ATTTTTCGTGTTA
Found at i:13411430 original size:12 final size:12
Alignment explanation
Indices: 13411413--13411441 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
13411403 GGATTATTAG
13411413 GGTTTTATTTAA
1 GGTTTTATTTAA
13411425 GGTTTTATTTAA
1 GGTTTTATTTAA
13411437 GGTTT
1 GGTTT
13411442 AGGGTTACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.59
Consensus pattern (12 bp):
GGTTTTATTTAA
Found at i:13415393 original size:19 final size:19
Alignment explanation
Indices: 13415365--13415406 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
13415355 TTGAGAGCTT
13415365 TTTGAGAATT-GTGAGA-AA
1 TTTGAGAATTAG-GAGAGAA
13415383 TTTGAGAAATTAGGAGAGAA
1 TTTGAG-AATTAGGAGAGAA
13415403 TTTG
1 TTTG
13415407 TGTGAATTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
18 6 0.29
19 8 0.38
20 7 0.33
ACGTcount: A:0.38, C:0.00, G:0.29, T:0.33
Consensus pattern (19 bp):
TTTGAGAATTAGGAGAGAA
Found at i:13415989 original size:19 final size:19
Alignment explanation
Indices: 13415960--13416006 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
13415950 GCCAGCATGT
*
13415960 GAAATAAACTAAAGATAAAA
1 GAAA-AAACTAAACATAAAA
*
13415980 GAAAAAACTAGACATAAAA
1 GAAAAAACTAAACATAAAA
13415999 GAAAAAAC
1 GAAAAAAC
13416007 CAAAAATTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 21 0.84
20 4 0.16
ACGTcount: A:0.70, C:0.09, G:0.11, T:0.11
Consensus pattern (19 bp):
GAAAAAACTAAACATAAAA
Found at i:13420103 original size:43 final size:43
Alignment explanation
Indices: 13419940--13420133 Score: 223
Period size: 42 Copynumber: 4.6 Consensus size: 43
13419930 TTCAATATCC
* * * * *
13419940 ATTTGAGATTCCGTATAAGACCATATCTAGGATA-TGGCATCG
1 ATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCG
* * *
13419982 ATTTGAGA-TTCGTGTAGGACCATAGCTGGGTTATTGGCATCA
1 ATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCG
* *
13420024 ATTTGAGA-TTCGTTTAAGACCATAGCTGAGCTATTGGCATCG
1 ATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCG
* *
13420066 ATTTGAGATTTCATGTAAGACCATAGCTGGGCAATTGGCATCG
1 ATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCG
** *
13420109 ATACGAGATTTCCATGTAAGACCAT
1 ATTTGAGATTT-CGTGTAAGACCAT
13420134 GTCTGGGACA
Statistics
Matches: 131, Mismatches: 18, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
41 19 0.15
42 60 0.46
43 39 0.30
44 13 0.10
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.31
Consensus pattern (43 bp):
ATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCG
Found at i:13420118 original size:85 final size:84
Alignment explanation
Indices: 13419944--13420133 Score: 222
Period size: 85 Copynumber: 2.2 Consensus size: 84
13419934 ATATCCATTT
* * *
13419944 GAGATTCCGTATAAGACCATATCTAGGATATGGCATCGATTTGAGATTCGTGTAGGACCATAGCT
1 GAGATTCCGTATAAGACCATAGCTAGGATATGGCATCGATTTGAGATTCATGTAAGACCATAGCT
** **
13420009 GGGTTATTGGCATCAATTT
66 GGGCAATTGGCATCAATAC
* *
13420028 GAGATT-CGTTTAAGACCATAGCT-GAGCTATTGGCATCGATTTGAGATTTCATGTAAGACCATA
1 GAGATTCCGTATAAGACCATAGCTAG-GATA-TGGCATCGATTTGAGA-TTCATGTAAGACCATA
*
13420091 GCTGGGCAATTGGCATCGATAC
63 GCTGGGCAATTGGCATCAATAC
* *
13420113 GAGATTTCCATGTAAGACCAT
1 GAGA-TTCCGTATAAGACCAT
13420134 GTCTGGGACA
Statistics
Matches: 89, Mismatches: 12, Indels: 7
0.82 0.11 0.06
Matches are distributed among these distances:
82 1 0.01
83 18 0.20
84 22 0.25
85 35 0.39
86 2 0.02
87 11 0.12
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (84 bp):
GAGATTCCGTATAAGACCATAGCTAGGATATGGCATCGATTTGAGATTCATGTAAGACCATAGCT
GGGCAATTGGCATCAATAC
Found at i:13430558 original size:44 final size:44
Alignment explanation
Indices: 13430394--13430780 Score: 240
Period size: 44 Copynumber: 9.0 Consensus size: 44
13430384 CAGGGGGATC
* * *
13430394 ATTGGCTTTAATCTTCTCCACTGCAACTTCAGGGAGATAGGACTA
1 ATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TT
* * *
13430439 AAT-GC---AA-CATGCT-CTCTGCAACTTCAGAGAGATAAGATCT
1 ATTGGCTTTAATC-TGCTCCACTGCAACTTCAGGGAGATAAGAT-T
* * * * *
13430479 -GTGGTTTTAATCCGCTCC-CTGCAACTTTAGGGAGATAGGATT
1 ATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
*
13430521 ATTGGCTTTAATCTGCTCCACTGTAACTTCAGGGAGATAAGA-T
1 ATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
* *
13430564 -TTGCCATCTTCAGTCTGC-CTCACTGCAACTTCA-GGAGGATAAGACTT
1 ATTGGC-T-TT-AATCTGCTC-CACTGCAACTTCAGGGA-GATAAGA-TT
* * *
13430611 GCTT-GC-TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACT
1 -ATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
* * * * *
13430654 AGAT-GC---GATTTGCT-CTCTGCAACTTCAGAGAGATAAGA-T
1 A-TTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
* * ** * *
13430693 -CTGTGATTTAATCCACTCCACTGCAACTTCAAGGAGATAGGATT
1 ATTG-GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
* * *
13430737 ATCGGCTCTAATCTGCTCCACTGCAACTTCAAGGAGATAAGATT
1 ATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
13430781 TGCCNNNNNN
Statistics
Matches: 265, Mismatches: 47, Indels: 61
0.71 0.13 0.16
Matches are distributed among these distances:
37 1 0.00
39 4 0.02
40 45 0.17
41 10 0.04
42 9 0.03
43 66 0.25
44 92 0.35
45 34 0.13
47 1 0.00
48 1 0.00
49 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29
Consensus pattern (44 bp):
ATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
Found at i:13430994 original size:42 final size:42
Alignment explanation
Indices: 13430898--13431049 Score: 135
Period size: 42 Copynumber: 3.7 Consensus size: 42
13430888 ATCGGCTCTA
*
13430898 ATCTGCTC-ACTGCAACTTCAAGGAGATAGATTTGCCATCTTC
1 ATCTGCTCTACTGCAACTTC-AGGAGATAGACTTGCCATCTTC
*
13430940 ATCT-CT-TCACTGCAACTTCAGGAGATAGACTTG-CTTGCTT-
1 ATCTGCTCT-ACTGCAACTTCAGGAGATAGACTTGCCAT-CTTC
*
13430980 AGTCTGCTCTACTGCAACTTCAGGGAGATAAGACTAG--ATC--C
1 A-TCTGCTCTACTGCAACTTCA-GGAGAT-AGACTTGCCATCTTC
13431021 GATCTGCTCT-CTGCAACTTCAGAGAGATA
1 -ATCTGCTCTACTGCAACTTCAG-GAGATA
13431050 AGATCTGTGA
Statistics
Matches: 95, Mismatches: 4, Indels: 25
0.77 0.03 0.20
Matches are distributed among these distances:
39 2 0.02
40 19 0.20
41 29 0.31
42 31 0.33
43 8 0.08
44 6 0.06
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (42 bp):
ATCTGCTCTACTGCAACTTCAGGAGATAGACTTGCCATCTTC
Found at i:13443054 original size:21 final size:20
Alignment explanation
Indices: 13442998--13443054 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 20
13442988 GCAAAGTATC
* *
13442998 AAATAAATAAAAATATGAAA
1 AAATAAATAAAAAAATAAAA
* *
13443018 ACATAAATCAACAAAATAAAA
1 AAATAAAT-AAAAAAATAAAA
13443039 AAATAAATAAAGAAAA
1 AAATAAATAAA-AAAA
13443055 GAGAGCACGT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
20 9 0.31
21 20 0.69
ACGTcount: A:0.75, C:0.05, G:0.04, T:0.16
Consensus pattern (20 bp):
AAATAAATAAAAAAATAAAA
Found at i:13443287 original size:23 final size:23
Alignment explanation
Indices: 13443257--13443303 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
13443247 ATACTAGTTA
* *
13443257 AAAAAATAAATATGTACATGTAT
1 AAAAAATAAATATGCACATATAT
13443280 AAAAAATAAATATGCACATATAT
1 AAAAAATAAATATGCACATATAT
13443303 A
1 A
13443304 TATAGATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.28
Consensus pattern (23 bp):
AAAAAATAAATATGCACATATAT
Found at i:13450711 original size:33 final size:32
Alignment explanation
Indices: 13450669--13450730 Score: 106
Period size: 33 Copynumber: 1.9 Consensus size: 32
13450659 ATCTTTATGC
*
13450669 CTTAAATTGAAAATGATTTTTATATAGGGGGAG
1 CTTAAATTGAAAATGACTTTTAT-TAGGGGGAG
13450702 CTTAAATTGAAAATGACTTTTATTAGGGG
1 CTTAAATTGAAAATGACTTTTATTAGGGG
13450731 AGCAATCTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
32 6 0.21
33 22 0.79
ACGTcount: A:0.35, C:0.05, G:0.23, T:0.37
Consensus pattern (32 bp):
CTTAAATTGAAAATGACTTTTATTAGGGGGAG
Found at i:13453781 original size:24 final size:25
Alignment explanation
Indices: 13453754--13453802 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
13453744 ATCCAATCAC
**
13453754 ATATTATTTTTGTAAAT-ATTTTTT
1 ATATTATTTTAATAAATAATTTTTT
13453778 ATATTATTTTAATAAATAATTTTTT
1 ATATTATTTTAATAAATAATTTTTT
13453803 TCTATATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 15 0.68
25 7 0.32
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (25 bp):
ATATTATTTTAATAAATAATTTTTT
Found at i:13453844 original size:21 final size:22
Alignment explanation
Indices: 13453818--13453859 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
13453808 ATTATTGCTG
*
13453818 CAAAAAAGAAAG-GAAAAAAAA
1 CAAAAAAAAAAGTGAAAAAAAA
13453839 CAAAAAAAAAAGTGAAAAAAA
1 CAAAAAAAAAAGTGAAAAAAA
13453860 TATGGCAGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.81, C:0.05, G:0.12, T:0.02
Consensus pattern (22 bp):
CAAAAAAAAAAGTGAAAAAAAA
Found at i:13463030 original size:56 final size:56
Alignment explanation
Indices: 13462964--13463077 Score: 149
Period size: 56 Copynumber: 2.0 Consensus size: 56
13462954 CTAGGCTATG
* * **
13462964 ATCCATGTTCAATGATACTATATCG-AGATTTCAAACATTAAGTGGTGGGAAAATAA
1 ATCCATGTTCAATGATACTATAT-GTAGATTGCAAACATAAAGTGGCAGGAAAATAA
* * *
13463020 ATCCATGTTCAATTATACTATATGTAGATTGCATACCTAAAGTGGCAGGAAAATAA
1 ATCCATGTTCAATGATACTATATGTAGATTGCAAACATAAAGTGGCAGGAAAATAA
13463076 AT
1 AT
13463078 AGTGGAAATA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
55 1 0.02
56 49 0.98
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (56 bp):
ATCCATGTTCAATGATACTATATGTAGATTGCAAACATAAAGTGGCAGGAAAATAA
Found at i:13473829 original size:88 final size:88
Alignment explanation
Indices: 13473668--13473846 Score: 322
Period size: 88 Copynumber: 2.0 Consensus size: 88
13473658 ACCTTTAAAT
13473668 AGATATAGTCGAAACTCCTCTTGTATCATTTGATTTTCAACATTAGTGAATTTTCTTCTCCTTTG
1 AGATATAGTCGAAACTCCTCTTGTATCATTTGATTTTCAACATTAGTGAATTTTCTTCTCCTTTG
*
13473733 CTCGTTTGCTCGTGGTTTTTTCC
66 CTCCTTTGCTCGTGGTTTTTTCC
*
13473756 AGATGTAGTCGAAACTCCTCTTGTATCATTTGATTTTCAACATTAGTGAATTTTCTTCTCCTTTG
1 AGATATAGTCGAAACTCCTCTTGTATCATTTGATTTTCAACATTAGTGAATTTTCTTCTCCTTTG
* *
13473821 TTCCTTTGCTCGTGTTTTTTTCC
66 CTCCTTTGCTCGTGGTTTTTTCC
13473844 AGA
1 AGA
13473847 AAGAGTTTTC
Statistics
Matches: 87, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
88 87 1.00
ACGTcount: A:0.18, C:0.20, G:0.15, T:0.47
Consensus pattern (88 bp):
AGATATAGTCGAAACTCCTCTTGTATCATTTGATTTTCAACATTAGTGAATTTTCTTCTCCTTTG
CTCCTTTGCTCGTGGTTTTTTCC
Found at i:13476087 original size:22 final size:22
Alignment explanation
Indices: 13476059--13476211 Score: 225
Period size: 22 Copynumber: 7.0 Consensus size: 22
13476049 TTTATTGTTC
*
13476059 AAACATGAGAGCTTAGTACGTG
1 AAACATGAGAGCTTAGTACGTT
13476081 AAACATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
**
13476103 AGCCATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
** * * *
13476125 AGCCATGAGGGTTTAGTTCGTT
1 AAACATGAGAGCTTAGTACGTT
13476147 AAACATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
*
13476169 AAACATGAGAGCTTAGTACGTG
1 AAACATGAGAGCTTAGTACGTT
13476191 AAACATGAGAGCTTAGTACGT
1 AAACATGAGAGCTTAGTACGT
13476212 ACTATCAACA
Statistics
Matches: 119, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 119 1.00
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (22 bp):
AAACATGAGAGCTTAGTACGTT
Found at i:13478378 original size:37 final size:37
Alignment explanation
Indices: 13478328--13478404 Score: 145
Period size: 37 Copynumber: 2.1 Consensus size: 37
13478318 ATTCCAAGTG
13478328 TAGACTTCATAGATATGTTTTCTCCAATTGTGAAGCA
1 TAGACTTCATAGATATGTTTTCTCCAATTGTGAAGCA
*
13478365 TAGACTTCATAGATATGTTTTCTCCAGTTGTGAAGCA
1 TAGACTTCATAGATATGTTTTCTCCAATTGTGAAGCA
13478402 TAG
1 TAG
13478405 TTCGATTCGA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.38
Consensus pattern (37 bp):
TAGACTTCATAGATATGTTTTCTCCAATTGTGAAGCA
Found at i:13491338 original size:20 final size:21
Alignment explanation
Indices: 13491287--13491348 Score: 67
Period size: 20 Copynumber: 3.0 Consensus size: 21
13491277 GCTTGTACGG
*
13491287 GTTT-GCATTTTGGTGCCTCT
1 GTTTAGCATTTCGGTGCCTCT
*
13491307 GTTTA-CACTTCGGTGCCTCT
1 GTTTAGCATTTCGGTGCCTCT
*
13491327 G-TTAGCATTTCGATGCTCTCT
1 GTTTAGCATTTCGGTGC-CTCT
13491348 G
1 G
13491349 GTGTGTTTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
19 3 0.09
20 27 0.77
21 5 0.14
ACGTcount: A:0.10, C:0.24, G:0.23, T:0.44
Consensus pattern (21 bp):
GTTTAGCATTTCGGTGCCTCT
Found at i:13493882 original size:110 final size:109
Alignment explanation
Indices: 13493761--13493970 Score: 384
Period size: 110 Copynumber: 1.9 Consensus size: 109
13493751 AAAAAAATCT
* *
13493761 TTGTCTCGAGAAATCAATACGTCACATCCAATGCATTAGGACACAACATATTAAATTCCTGAGAA
1 TTGTCTCGAGAAATCAATACGTCACATCCAATGCATTAGGACACAACATATTAAATTCCCGACAA
13493826 CAAGCTTTTCATTTTATTTTTGATTAAAGAGCATTCAAAAAAAAA
66 CAAGCTTTTCA-TTTATTTTTGATTAAAGAGCATTCAAAAAAAAA
*
13493871 TTGTCTCGAGAAATCAATACGTCACATCCAATGCATTCGGACACAACATATTAAATTCCCGACAA
1 TTGTCTCGAGAAATCAATACGTCACATCCAATGCATTAGGACACAACATATTAAATTCCCGACAA
13493936 CAAGCTTTTCATTTATTTTTGATTAAAGAGCATTC
66 CAAGCTTTTCATTTATTTTTGATTAAAGAGCATTC
13493971 TCGATTATTA
Statistics
Matches: 97, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
109 24 0.25
110 73 0.75
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.31
Consensus pattern (109 bp):
TTGTCTCGAGAAATCAATACGTCACATCCAATGCATTAGGACACAACATATTAAATTCCCGACAA
CAAGCTTTTCATTTATTTTTGATTAAAGAGCATTCAAAAAAAAA
Found at i:13496310 original size:41 final size:42
Alignment explanation
Indices: 13496248--13496402 Score: 134
Period size: 44 Copynumber: 3.6 Consensus size: 42
13496238 TTGAGTCTGT
* * *
13496248 TCCACTGCAACATCAGGGAGATAAGACCCGAT-G-TGATCTAC
1 TCCACTGCAACTTCAGAGAGATAAGACCCG-TGGTTAATCTAC
* * *
13496289 TCCACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCTGC
1 TCCACTGCAACTTCAGAGAGATAAGACCCGTGG--TTAATCTAC
* **** *
13496333 TCCACTGCAACTTCAGAGAGATAGGATTATTGGCTTTAATCTGC
1 TCCACTGCAACTTCAGAGAGATAAGACCCGTGG--TTAATCTAC
*
13496377 TCCACTGCAACTTCAGGGAGATAAGA
1 TCCACTGCAACTTCAGAGAGATAAGA
13496403 TTCACCATCT
Statistics
Matches: 97, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
40 1 0.01
41 27 0.28
44 69 0.71
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (42 bp):
TCCACTGCAACTTCAGAGAGATAAGACCCGTGGTTAATCTAC
Found at i:13496340 original size:44 final size:44
Alignment explanation
Indices: 13496283--13496404 Score: 183
Period size: 44 Copynumber: 2.8 Consensus size: 44
13496273 ACCCGATGTG
* *
13496283 ATCTACTCCACTGCAACTTCAGAGAGATAAGATCT-GTGGTTTTA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGAT-TAGTGGCTTTA
* *
13496327 ATCTGCTCCACTGCAACTTCAGAGAGATAGGATTATTGGCTTTA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATTAGTGGCTTTA
*
13496371 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATT
13496405 CACCATCTTA
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
43 1 0.01
44 70 0.99
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACTTCAGAGAGATAAGATTAGTGGCTTTA
Found at i:13496478 original size:44 final size:43
Alignment explanation
Indices: 13496283--13496482 Score: 169
Period size: 44 Copynumber: 4.5 Consensus size: 43
13496273 ACCCGATGTG
* **
13496283 ATCTACTCCACTGCAACTTCA-GAGAGATAAGA-TCTGTGGTTTTA
1 ATCTGCTCCACTGCAACTTCAGGAGAGATAAGATTCT-T--ACTTA
* * *
13496327 ATCTGCTCCACTGCAACTTCA-GAGAGATAGGATTATTGGCTTTA
1 ATCTGCTCCACTGCAACTTCAGGAGAGATAAGATTCTT-AC-TTA
**
13496371 ATCTGCTCCACTGCAACTTCAGG-GAGATAAGATTCACCATCTTA
1 ATCTGCTCCACTGCAACTTCAGGAGAGATAAGATTC-TTA-CTTA
13496415 AGTCTGC-CTCACTGCAACTTCAGGAG-GATAAGACTTGCTTACTTA
1 A-TCTGCTC-CACTGCAACTTCAGGAGAGATAAGA-TT-CTTACTTA
* *
13496460 GTCTGCTCCATTGCAACTTCAGG
1 ATCTGCTCCACTGCAACTTCAGG
13496483 GATATCTTCA
Statistics
Matches: 131, Mismatches: 14, Indels: 22
0.78 0.08 0.13
Matches are distributed among these distances:
43 1 0.01
44 89 0.68
45 36 0.27
46 4 0.03
47 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (43 bp):
ATCTGCTCCACTGCAACTTCAGGAGAGATAAGATTCTTACTTA
Found at i:13508691 original size:111 final size:112
Alignment explanation
Indices: 13508556--13508779 Score: 414
Period size: 111 Copynumber: 2.0 Consensus size: 112
13508546 TAATTTTTTT
13508556 AAAAAAAAAGCTTTATCTCAAGAAATCAATACGTCACATCCAATGCATTAGGACACAACATATTA
1 AAAAAAAAA-CTTTATCTCAAGAAATCAATACGTCACATCCAATGCATTAGGACACAACATATTA
13508621 AATTCCCGACAACAAGCTTTTCATTTTATTTTTGATTAAAGAGCATTC
65 AATTCCCGACAACAAGCTTTTCATTTTATTTTTGATTAAAGAGCATTC
* *
13508669 AAAAAAAAA-TTTGTCTCGAGAAATCAATACGTCACATCCAATGCATTAGGACACAACATATTAA
1 AAAAAAAAACTTTATCTCAAGAAATCAATACGTCACATCCAATGCATTAGGACACAACATATTAA
13508733 ATTCCCGACAACAAGCTTTTCATTTTATTTTTGATTAAAGAGCATTC
66 ATTCCCGACAACAAGCTTTTCATTTTATTTTTGATTAAAGAGCATTC
13508780 TCGATTATTA
Statistics
Matches: 109, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
111 100 0.92
113 9 0.08
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.30
Consensus pattern (112 bp):
AAAAAAAAACTTTATCTCAAGAAATCAATACGTCACATCCAATGCATTAGGACACAACATATTAA
ATTCCCGACAACAAGCTTTTCATTTTATTTTTGATTAAAGAGCATTC
Found at i:13508997 original size:17 final size:17
Alignment explanation
Indices: 13508975--13509020 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
13508965 AATGGTATAG
13508975 AAATAATATAAAC-AAAT
1 AAATAA-ATAAACGAAAT
13508992 AAATAAATAAACGAAATT
1 AAATAAATAAACGAAA-T
13509010 AATATAAATAA
1 AA-ATAAATAA
13509021 TAAAAAAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 6 0.23
17 9 0.35
18 3 0.12
19 8 0.31
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.24
Consensus pattern (17 bp):
AAATAAATAAACGAAAT
Found at i:13509284 original size:20 final size:20
Alignment explanation
Indices: 13509234--13509287 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
13509224 AAATAAAGAA
*
13509234 TATATATATATATATAGAAAT
1 TATA-ATATATATATAGAAAG
* * *
13509255 TTTAAAATATGTATAGAAAG
1 TATAATATATATATAGAAAG
13509275 TATAATATATATA
1 TATAATATATATA
13509288 CTTACATATA
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
20 23 0.88
21 3 0.12
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (20 bp):
TATAATATATATATAGAAAG
Found at i:13510811 original size:40 final size:39
Alignment explanation
Indices: 13510764--13510901 Score: 102
Period size: 40 Copynumber: 3.5 Consensus size: 39
13510754 CGTTTGAACA
*
13510764 AAAAACGCCGATAAAAATCGAGCATTAGCGGTG-CTTTAT
1 AAAAACGCCGATAAAAAT-GAGCATTAGCGGCGCCTTTAT
* * * * *
13510803 GGAAAACGCC-ACTAAAGATTGAGAATTAGCAGCGCCTTTCT
1 -AAAAACGCCGA-TAAA-AATGAGCATTAGCGGCGCCTTTAT
* * ** *
13510844 AAAAACGTCGTTAAAAATGAGCATTAGCGGCGTTTTTCGT
1 AAAAACGCCGATAAAAATGAGCATTAGCGGCGCCTTT-AT
13510884 AAAAACGCCGCA-AAAAAT
1 AAAAACGCCG-ATAAAAAT
13510902 CTAAGCCCAA
Statistics
Matches: 75, Mismatches: 17, Indels: 12
0.72 0.16 0.12
Matches are distributed among these distances:
39 18 0.24
40 50 0.67
41 7 0.09
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.22
Consensus pattern (39 bp):
AAAAACGCCGATAAAAATGAGCATTAGCGGCGCCTTTAT
Found at i:13511021 original size:40 final size:41
Alignment explanation
Indices: 13510935--13511026 Score: 134
Period size: 40 Copynumber: 2.3 Consensus size: 41
13510925 TGACCTTTCG
* *
13510935 GGGCTTTAGTGGCGTTTTTGAAAAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGACGTTTTTGAAAAAGCGCCGCTAATGCTCA
*
13510976 GGGCTTTAGCGACGTTTTTG-AAAAGCGCCGCTAATTCTC-
1 GGGCTTTAGCGACGTTTTTGAAAAAGCGCCGCTAATGCTCA
13511015 GAGGCTTTAGCG
1 G-GGCTTTAGCG
13511027 GCGCATTTTA
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
39 1 0.02
40 28 0.60
41 18 0.38
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (41 bp):
GGGCTTTAGCGACGTTTTTGAAAAAGCGCCGCTAATGCTCA
Done.