Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr2
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: 41236440
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2030548 characters in sequence are not A, C, G, or T
File 37 of 106
Found at i:14048363 original size:21 final size:21
Alignment explanation
Indices: 14048325--14048364 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
14048315 GCCTGAAATG
*
14048325 TATCGATACATTGCCTCAATA
1 TATCGATACATTGACTCAATA
*
14048346 TATCGATACATTTACTCAA
1 TATCGATACATTGACTCAA
14048365 AATTAGGACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.23, G:0.07, T:0.35
Consensus pattern (21 bp):
TATCGATACATTGACTCAATA
Found at i:14050090 original size:20 final size:21
Alignment explanation
Indices: 14050061--14050105 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
14050051 ATGAACTTTC
14050061 TATAACACACAT-AT-ATATA
1 TATAACACACATCATCATATA
14050080 TATACACACACATCATCATATA
1 TATA-ACACACATCATCATATA
14050102 TATA
1 TATA
14050106 TACCATACTC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.17
20 8 0.35
21 2 0.09
22 9 0.39
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.31
Consensus pattern (21 bp):
TATAACACACATCATCATATA
Found at i:14050121 original size:28 final size:28
Alignment explanation
Indices: 14050071--14050125 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
14050061 TATAACACAC
*
14050071 ATATATATATATACACACACATCATCAT
1 ATATATATACATACACACACATCATCAT
*
14050099 ATATATATACCATACTCAC-CATCATCA
1 ATATATATA-CATACACACACATCATCA
14050126 GCTCATGTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 17 0.71
29 7 0.29
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (28 bp):
ATATATATACATACACACACATCATCAT
Found at i:14050199 original size:42 final size:42
Alignment explanation
Indices: 14050118--14050250 Score: 212
Period size: 42 Copynumber: 3.1 Consensus size: 42
14050108 CCATACTCAC
*
14050118 CATCATCAGCTCATGTGCACTCCCCACTCGCACATAGTTGGGT
1 CATCATCAGCTCATGTGCACT-CCCACACGCACATAGTTGGGT
*
14050161 CATCATAAGCTCATGTGCACTCCCACACGCACATAGTTGGGT
1 CATCATCAGCTCATGTGCACTCCCACACGCACATAGTTGGGT
* * *
14050203 CATCATCAGCTCATGTGCACTTCTACATGCACATAGTTGGGT
1 CATCATCAGCTCATGTGCACTCCCACACGCACATAGTTGGGT
14050245 CATCAT
1 CATCAT
14050251 TATCACAAAA
Statistics
Matches: 84, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
42 64 0.76
43 20 0.24
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (42 bp):
CATCATCAGCTCATGTGCACTCCCACACGCACATAGTTGGGT
Found at i:14059126 original size:20 final size:20
Alignment explanation
Indices: 14059069--14059131 Score: 101
Period size: 20 Copynumber: 3.2 Consensus size: 20
14059059 TATATACCCA
*
14059069 TCATCATCATC-TCACCAAC
1 TCATCATCATCATCACCAGC
*
14059088 CCATCATCATCATCACCAGC
1 TCATCATCATCATCACCAGC
14059108 TCATCATCATCATCACCAGC
1 TCATCATCATCATCACCAGC
14059128 TCAT
1 TCAT
14059132 GCGCACTCCC
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
19 10 0.25
20 30 0.75
ACGTcount: A:0.30, C:0.41, G:0.03, T:0.25
Consensus pattern (20 bp):
TCATCATCATCATCACCAGC
Found at i:14059282 original size:43 final size:43
Alignment explanation
Indices: 14059130--14059275 Score: 197
Period size: 43 Copynumber: 3.4 Consensus size: 43
14059120 TCACCAGCTC
**
14059130 ATGCGCACTCCCTACTCGCACATGGCTAGGTCATCACCGGGTT
1 ATGCGCACTCCCTACTCGCACATAACTAGGTCATCACCGGGTT
*
14059173 ATGCGCACTCCCTACTCGCACATAA-TCGGGTCATCACCGGGTT
1 ATGCGCACTCCCTACTCGCACATAACT-AGGTCATCACCGGGTT
* * *
14059216 ATGCGCACTCTCTACTCGCACATAACTATGTCATC-CTCGGCTT
1 ATGCGCACTCCCTACTCGCACATAACTAGGTCATCAC-CGGGTT
*
14059259 ATGAGCACTCCCTACTC
1 ATGCGCACTCCCTACTC
14059276 ATACATAGTC
Statistics
Matches: 91, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
42 2 0.02
43 88 0.97
44 1 0.01
ACGTcount: A:0.21, C:0.36, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAACTAGGTCATCACCGGGTT
Found at i:14074300 original size:13 final size:13
Alignment explanation
Indices: 14074282--14074336 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
14074272 TATTAAAGTC
*
14074282 TAAGTAAGTAAAA
1 TAAGTAAATAAAA
14074295 TAAGTAAAT-AAA
1 TAAGTAAATAAAA
*
14074307 TAA-TACATAACAA
1 TAAGTAAATAA-AA
*
14074320 TAAAATAAATAAAA
1 T-AAGTAAATAAAA
14074334 TAA
1 TAA
14074337 AAATAATTTC
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
11 4 0.11
12 7 0.20
13 13 0.37
14 5 0.14
15 6 0.17
ACGTcount: A:0.67, C:0.04, G:0.05, T:0.24
Consensus pattern (13 bp):
TAAGTAAATAAAA
Found at i:14074339 original size:15 final size:15
Alignment explanation
Indices: 14074291--14074342 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
14074281 CTAAGTAAGT
*
14074291 AAAATAAGT-AAATA
1 AAAATAAATAAAATA
*
14074305 AATAATACATAACAAT-
1 AA-AATAAATAA-AATA
14074321 AAAATAAATAAAATA
1 AAAATAAATAAAATA
14074336 AAAATAA
1 AAAATAA
14074343 TTTCTACATT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
14 5 0.16
15 20 0.65
16 3 0.10
17 3 0.10
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.21
Consensus pattern (15 bp):
AAAATAAATAAAATA
Found at i:14076025 original size:33 final size:36
Alignment explanation
Indices: 14075921--14076049 Score: 158
Period size: 36 Copynumber: 3.7 Consensus size: 36
14075911 TAATCGTGCG
* * * **
14075921 TGTGGGGTGTGGGAGTGCACATGACGATGAT-GGCGG
1 TGTGCGGTGTGGGAGTGCACATGATGAT-ATATGCCA
14075957 TGTGCGGTGTGGGAGTGCACATGATGATATATGCCA
1 TGTGCGGTGTGGGAGTGCACATGATGATATATGCCA
*
14075993 TGTGCGGTGTGGGAGTGCACATGAT-A-CT-TGCCA
1 TGTGCGGTGTGGGAGTGCACATGATGATATATGCCA
*
14076026 TGTGCGGTGTGAGAGTGCACATGA
1 TGTGCGGTGTGGGAGTGCACATGA
14076050 GCTAAGTTGA
Statistics
Matches: 85, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
33 28 0.33
34 1 0.01
35 3 0.04
36 53 0.62
ACGTcount: A:0.19, C:0.14, G:0.41, T:0.26
Consensus pattern (36 bp):
TGTGCGGTGTGGGAGTGCACATGATGATATATGCCA
Found at i:14077862 original size:10 final size:10
Alignment explanation
Indices: 14077847--14077876 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
14077837 TTCTCTTTGG
14077847 GTTTATATAA
1 GTTTATATAA
14077857 GTTTATATAA
1 GTTTATATAA
*
14077867 GTTTACATAA
1 GTTTATATAA
14077877 ACAAAGTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.40, C:0.03, G:0.10, T:0.47
Consensus pattern (10 bp):
GTTTATATAA
Found at i:14080724 original size:43 final size:42
Alignment explanation
Indices: 14080599--14080724 Score: 153
Period size: 42 Copynumber: 3.0 Consensus size: 42
14080589 TGTTGATGTG
* * * * *
14080599 GACCCGGCTATGTGCGAGTAGGAGTGTACATAAGTCGATGAT
1 GACCCAGCCATGTGCGAGTGGGAGTGCACATAAGCCGATGAT
*
14080641 GACCCAGCTATGTGCGAGTGGGAGTGCACATAAGCCGATGAT
1 GACCCAGCCATGTGCGAGTGGGAGTGCACATAAGCCGATGAT
* * * *
14080683 GACCTAGCCATGTGCTAGTGTGGAGTGCACATGAGCTGATGA
1 GACCCAGCCATGTGCGAGTG-GGAGTGCACATAAGCCGATGA
14080725 CGATGGGAGT
Statistics
Matches: 74, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
42 55 0.74
43 19 0.26
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.22
Consensus pattern (42 bp):
GACCCAGCCATGTGCGAGTGGGAGTGCACATAAGCCGATGAT
Found at i:14082394 original size:2 final size:2
Alignment explanation
Indices: 14082387--14082428 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
14082377 TATGACATAG
14082387 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14082429 NNNNNNNNNN
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14116799 original size:16 final size:17
Alignment explanation
Indices: 14116778--14116811 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
14116768 AAATATTGTT
*
14116778 AATA-TTAATAATAAAA
1 AATATTTAAAAATAAAA
14116794 AATATTTAAAAATAAAA
1 AATATTTAAAAATAAAA
14116811 A
1 A
14116812 TTTAGGAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
AATATTTAAAAATAAAA
Found at i:14117099 original size:14 final size:14
Alignment explanation
Indices: 14117055--14117116 Score: 56
Period size: 13 Copynumber: 4.6 Consensus size: 14
14117045 AATTTTCAAC
14117055 GAAAAATTCTGTTG
1 GAAAAATTCTGTTG
* ****
14117069 G-AAAATTTTCAAC
1 GAAAAATTCTGTTG
14117082 GAAAAATTCTGTTG
1 GAAAAATTCTGTTG
*
14117096 GAAAATTTC-GTTG
1 GAAAAATTCTGTTG
14117109 GAAAAATT
1 GAAAAATT
14117117 TGATTTCTGT
Statistics
Matches: 35, Mismatches: 12, Indels: 3
0.70 0.24 0.06
Matches are distributed among these distances:
13 19 0.54
14 16 0.46
ACGTcount: A:0.40, C:0.08, G:0.18, T:0.34
Consensus pattern (14 bp):
GAAAAATTCTGTTG
Found at i:14117116 original size:27 final size:27
Alignment explanation
Indices: 14117042--14117103 Score: 124
Period size: 27 Copynumber: 2.3 Consensus size: 27
14117032 AAAATCCGTT
14117042 GAAAATTTTCAACGAAAAATTCTGTTG
1 GAAAATTTTCAACGAAAAATTCTGTTG
14117069 GAAAATTTTCAACGAAAAATTCTGTTG
1 GAAAATTTTCAACGAAAAATTCTGTTG
14117096 GAAAATTT
1 GAAAATTT
14117104 CGTTGGAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.34
Consensus pattern (27 bp):
GAAAATTTTCAACGAAAAATTCTGTTG
Found at i:14117117 original size:14 final size:15
Alignment explanation
Indices: 14117082--14117117 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
14117072 AATTTTCAAC
14117082 GAAAAA-TTCTGTTG
1 GAAAAATTTCTGTTG
14117096 G-AAAATTTC-GTTG
1 GAAAAATTTCTGTTG
14117109 GAAAAATTT
1 GAAAAATTT
14117118 GATTTCTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 9 0.45
14 11 0.55
ACGTcount: A:0.39, C:0.06, G:0.19, T:0.36
Consensus pattern (15 bp):
GAAAAATTTCTGTTG
Found at i:14117769 original size:19 final size:19
Alignment explanation
Indices: 14117741--14117788 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
14117731 CACCAGGCAA
*
14117741 AGCCAACTCTGCTACTGGC
1 AGCCATCTCTGCTACTGGC
14117760 AGCCATCTCTGCTACTGGC
1 AGCCATCTCTGCTACTGGC
14117779 AGCCATCTCT
1 AGCCATCTCT
14117789 AATGAGCTGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.19, C:0.38, G:0.19, T:0.25
Consensus pattern (19 bp):
AGCCATCTCTGCTACTGGC
Found at i:14118547 original size:24 final size:23
Alignment explanation
Indices: 14118494--14118547 Score: 54
Period size: 24 Copynumber: 2.3 Consensus size: 23
14118484 AATCTTTCAA
* *
14118494 AAAAAAAACCAGATTCAAACAAC
1 AAAAAAAACCAAAATCAAACAAC
* *
14118517 AACAAAAAACCACAAATCAACCACC
1 AA-AAAAAACCA-AAATCAAACAAC
14118542 AAAAAA
1 AAAAAA
14118548 TCCTAAACTA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
23 2 0.08
24 13 0.52
25 10 0.40
ACGTcount: A:0.67, C:0.26, G:0.02, T:0.06
Consensus pattern (23 bp):
AAAAAAAACCAAAATCAAACAAC
Found at i:14119143 original size:19 final size:19
Alignment explanation
Indices: 14119121--14119163 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
14119111 CTATCACTCT
*
14119121 AATTTATATATTTATAATA
1 AATTAATATATTTATAATA
*
14119140 AATTAATATATTTTTAATA
1 AATTAATATATTTATAATA
*
14119159 TATTA
1 AATTA
14119164 TATTAATAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
AATTAATATATTTATAATA
Found at i:14121559 original size:224 final size:224
Alignment explanation
Indices: 14121151--14121575 Score: 600
Period size: 224 Copynumber: 1.9 Consensus size: 224
14121141 TTTTATACAG
* * *
14121151 CAAATGAAGGCAAGATCGAGCCTTTAATATTGGGATCAATCCCAAGGTATCTATTACCAGTAATG
1 CAAATGAAGGCAAGATCGAGCCCTTAATAGTGGGATCAATCCCAAGGTATCCATTACCAGTAATG
*
14121216 ATGGTAGATTTTCAACAAAGTAACAACTATTTTCTTAGTTAATGCTATGCGGCTCCAATGGGATT
66 AAGGTAGATTTTCAACAAAGTAACAACTATTTTCTTAGTTAATGCTATGCGGCTCCAATGGGATT
* * * *
14121281 TGCAAGTATAAATACAGTATCTTTAGATCATCATTGTAGAAGAATAAAAGAAGAAACAAGACACA
131 TGCAAGTATAAATACACTATCCTTAGATCACCATTGCAGAAGAATAAAAGAAGAAACAAGACACA
14121346 AGTTTAGTGCAAGTATTTTCACATTCTTT
196 AGTTTAGTGCAAGTATTTTCACATTCTTT
* * * **** **
14121375 CAAATGATGGCAAGATCGAGCCCTTCATAGTGGGATCGATTTTGAGGTATCCATTAGTAGTAATG
1 CAAATGAAGGCAAGATCGAGCCCTTAATAGTGGGATCAATCCCAAGGTATCCATTACCAGTAATG
* * *
14121440 AAGGTAGATTTTCAACAAAGTAACGACTCTTTTCTTAGTTAATGCTATGTGGCTCCAATGGGATT
66 AAGGTAGATTTTCAACAAAGTAACAACTATTTTCTTAGTTAATGCTATGCGGCTCCAATGGGATT
* * * * * *
14121505 TGCAAGTATAAATATACTATCCTTGGATCACCGTTGCAG-GGAAATAAGAGAAGAAACAATACAC
131 TGCAAGTATAAATACACTATCCTTAGATCACCATTGCAGAAG-AATAAAAGAAGAAACAAGACAC
14121569 AAGTTTA
195 AAGTTTA
14121576 AAGCAAACAA
Statistics
Matches: 174, Mismatches: 26, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
223 1 0.01
224 173 0.99
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.30
Consensus pattern (224 bp):
CAAATGAAGGCAAGATCGAGCCCTTAATAGTGGGATCAATCCCAAGGTATCCATTACCAGTAATG
AAGGTAGATTTTCAACAAAGTAACAACTATTTTCTTAGTTAATGCTATGCGGCTCCAATGGGATT
TGCAAGTATAAATACACTATCCTTAGATCACCATTGCAGAAGAATAAAAGAAGAAACAAGACACA
AGTTTAGTGCAAGTATTTTCACATTCTTT
Found at i:14124653 original size:29 final size:29
Alignment explanation
Indices: 14124601--14124787 Score: 218
Period size: 29 Copynumber: 6.4 Consensus size: 29
14124591 TCTTGGCTTT
*
14124601 AATTAAGACAAAATATGTTATCTTATCTAA
1 AATTAAGACAAAATATGTTTTCTTATCT-A
*
14124631 AATTGAGAC-AAATATGTTTTCTTATCTA
1 AATTAAGACAAAATATGTTTTCTTATCTA
* *
14124659 GATTAAGACAAAACATAT-TTTTCTTGTCTTA
1 AATTAAGAC-AAA-ATATGTTTTCTTATC-TA
* * * *
14124690 AATTAAGA-TAAACATGTTTTCTTGTCTG
1 AATTAAGACAAAATATGTTTTCTTATCTA
*
14124718 AATTAAGACAAAATATGTTTTCTTGTCTA
1 AATTAAGACAAAATATGTTTTCTTATCTA
* *
14124747 AATAAAGACAAAACATGTTTTCTTATCTA
1 AATTAAGACAAAATATGTTTTCTTATCTA
14124776 AATTAAGACAAA
1 AATTAAGACAAA
14124788 CATGTAAAAA
Statistics
Matches: 135, Mismatches: 16, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
28 20 0.15
29 83 0.61
30 19 0.14
31 13 0.10
ACGTcount: A:0.41, C:0.11, G:0.10, T:0.39
Consensus pattern (29 bp):
AATTAAGACAAAATATGTTTTCTTATCTA
Found at i:14125763 original size:2 final size:2
Alignment explanation
Indices: 14125756--14125798 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
14125746 AGAAAGAATA
14125756 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14125798 A
1 A
14125799 NNNNNNNNNN
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:14126288 original size:35 final size:34
Alignment explanation
Indices: 14126215--14126298 Score: 95
Period size: 34 Copynumber: 2.5 Consensus size: 34
14126205 TATTGTTTTG
*
14126215 GCTGCT-AATTTTTGGAGGAAAAAGTGCAGCTTA
1 GCTGCTGAATTTTTGGAGGAAAAAGAGCAGCTTA
* *
14126248 ACTGCTGAATTTTT-GAGGAAAAACAGAGTAGCTTA
1 GCTGCTGAATTTTTGGAGG-AAAA-AGAGCAGCTTA
14126283 GCTGCTG-A-TTTTGGAG
1 GCTGCTGAATTTTTGGAG
14126299 CCAATATAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
33 13 0.30
34 15 0.35
35 15 0.35
ACGTcount: A:0.30, C:0.12, G:0.27, T:0.31
Consensus pattern (34 bp):
GCTGCTGAATTTTTGGAGGAAAAAGAGCAGCTTA
Found at i:14126294 original size:34 final size:33
Alignment explanation
Indices: 14126215--14126298 Score: 91
Period size: 35 Copynumber: 2.5 Consensus size: 33
14126205 TATTGTTTTG
* *
14126215 GCTGCTAATTTTTGGAGGAAAAAGTGCAGCTTA
1 GCTGCTGATTTTTGGAGGAAAAAGAGCAGCTTA
* *
14126248 ACTGCTGAATTTTT-GAGGAAAAACAGAGTAGCTTA
1 GCTGCTG-ATTTTTGGAGG-AAAA-AGAGCAGCTTA
14126283 GCTGCTGA-TTTTGGAG
1 GCTGCTGATTTTTGGAG
14126299 CCAATATAAG
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
33 13 0.31
34 14 0.33
35 15 0.36
ACGTcount: A:0.30, C:0.12, G:0.27, T:0.31
Consensus pattern (33 bp):
GCTGCTGATTTTTGGAGGAAAAAGAGCAGCTTA
Found at i:14126476 original size:5 final size:5
Alignment explanation
Indices: 14126455--14126522 Score: 93
Period size: 5 Copynumber: 13.6 Consensus size: 5
14126445 ACGGTGGAAG
*
14126455 AAAG- AAAGA AAATA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA
1 AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA
* *
14126504 AAATA ACAAGA AAGGA AAA
1 AAAGA A-AAGA AAAGA AAA
14126523 TGGGCATGGC
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
4 4 0.07
5 48 0.86
6 4 0.07
ACGTcount: A:0.78, C:0.01, G:0.18, T:0.03
Consensus pattern (5 bp):
AAAGA
Found at i:14126578 original size:25 final size:25
Alignment explanation
Indices: 14126544--14126614 Score: 124
Period size: 25 Copynumber: 2.8 Consensus size: 25
14126534 CAACAAGTAA
14126544 GAAAAATGGACATGGTCCAATAAAG
1 GAAAAATGGACATGGTCCAATAAAG
14126569 GAAAAATGGACATGGTCCAATAAAG
1 GAAAAATGGACATGGTCCAATAAAG
**
14126594 GAAAAATGGGTATGGTCCAAT
1 GAAAAATGGACATGGTCCAAT
14126615 CAAAAAGAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.45, C:0.11, G:0.25, T:0.18
Consensus pattern (25 bp):
GAAAAATGGACATGGTCCAATAAAG
Found at i:14126625 original size:25 final size:24
Alignment explanation
Indices: 14126514--14126628 Score: 106
Period size: 25 Copynumber: 4.5 Consensus size: 24
14126504 AAATAACAAG
* * *
14126514 AAAGGAAAATGGGCATGGCCCAACA
1 AAAGAAAAATGGGCATGGTCCAA-T
*
14126539 AGTAAGAAAAATGGACATGGTCCAAT
1 A--AAGAAAAATGGGCATGGTCCAAT
*
14126565 AAAGGAAAAATGGACATGGTCCAAT
1 AAA-GAAAAATGGGCATGGTCCAAT
*
14126590 AAAGGAAAAATGGGTATGGTCCAAT
1 AAA-GAAAAATGGGCATGGTCCAAT
14126615 CAAA-AAGAAATGGG
1 -AAAGAA-AAATGGG
14126629 AGAAATCCAT
Statistics
Matches: 79, Mismatches: 6, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
24 4 0.05
25 52 0.66
26 4 0.05
27 19 0.24
ACGTcount: A:0.47, C:0.12, G:0.26, T:0.15
Consensus pattern (24 bp):
AAAGAAAAATGGGCATGGTCCAAT
Found at i:14131383 original size:21 final size:21
Alignment explanation
Indices: 14131359--14131399 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
14131349 GGTAATAAGT
14131359 GTTGTCTTAATTAAGACAAGA
1 GTTGTCTTAATTAAGACAAGA
*
14131380 GTTGTCTTAATTTAGACAAG
1 GTTGTCTTAATTAAGACAAG
14131400 GTACATGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.34, C:0.10, G:0.20, T:0.37
Consensus pattern (21 bp):
GTTGTCTTAATTAAGACAAGA
Found at i:14132792 original size:43 final size:42
Alignment explanation
Indices: 14132688--14132792 Score: 138
Period size: 42 Copynumber: 2.5 Consensus size: 42
14132678 GTGCAAGTTT
* *
14132688 GAGTGTACATAAGCCGATGATGACCTAGCTATGTGCGAATGG
1 GAGTGCACATAAGCCGATGATGACCTAGCCATGTGCGAATGG
* * *
14132730 GAGTGGACATAAGCCGATGATGACCTAGCCATGTGCTAGTGGG
1 GAGTGCACATAAGCCGATGATGACCTAGCCATGTGCGAAT-GG
* *
14132773 GAGTGCACATGAGCTGATGA
1 GAGTGCACATAAGCCGATGA
14132793 CGATGGGAGA
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
42 36 0.65
43 19 0.35
ACGTcount: A:0.28, C:0.17, G:0.33, T:0.22
Consensus pattern (42 bp):
GAGTGCACATAAGCCGATGATGACCTAGCCATGTGCGAATGG
Found at i:14132826 original size:2 final size:2
Alignment explanation
Indices: 14132819--14132862 Score: 61
Period size: 2 Copynumber: 22.0 Consensus size: 2
14132809 TTGATGATAA
* * *
14132819 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT GT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14132861 AT
1 AT
14132863 GTGTTATAGA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (2 bp):
AT
Found at i:14134112 original size:17 final size:17
Alignment explanation
Indices: 14134082--14134114 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
14134072 AGTTATCTTA
14134082 ATATAAAAATATTTTTT
1 ATATAAAAATATTTTTT
14134099 ATATAGAAAA-ATTTTT
1 ATATA-AAAATATTTTT
14134115 ATGAACATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (17 bp):
ATATAAAAATATTTTTT
Found at i:14135356 original size:32 final size:32
Alignment explanation
Indices: 14135315--14135394 Score: 88
Period size: 32 Copynumber: 2.5 Consensus size: 32
14135305 GTTTTGCAAG
* *
14135315 ACTCGCCTTTTCAAGCGTAACCATAAATCAAC
1 ACTCGCCTTTCCAAGCGAAACCATAAATCAAC
* * * *
14135347 ACTCGCCTTTCCAAGTGAAATCATAAATCGAT
1 ACTCGCCTTTCCAAGCGAAACCATAAATCAAC
* *
14135379 TCTCGCTTTTCCAAGC
1 ACTCGCCTTTCCAAGC
14135395 ATCATCATAT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.30, C:0.30, G:0.11, T:0.29
Consensus pattern (32 bp):
ACTCGCCTTTCCAAGCGAAACCATAAATCAAC
Found at i:14135882 original size:21 final size:20
Alignment explanation
Indices: 14135844--14135882 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
14135834 CCATATATTG
*
14135844 TCCCATTTATCAATAGATTA
1 TCCCATTTATCAACAGATTA
*
14135864 TCCCGATTTATCGACAGAT
1 TCCC-ATTTATCAACAGAT
14135883 ACGAAGCAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.31, C:0.23, G:0.10, T:0.36
Consensus pattern (20 bp):
TCCCATTTATCAACAGATTA
Found at i:14136265 original size:15 final size:15
Alignment explanation
Indices: 14136245--14136275 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
14136235 AATCATATTG
14136245 AGTTGTTTTAATTTA
1 AGTTGTTTTAATTTA
*
14136260 AGTTGTTTTATTTTA
1 AGTTGTTTTAATTTA
14136275 A
1 A
14136276 TTTTATGTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.13, T:0.61
Consensus pattern (15 bp):
AGTTGTTTTAATTTA
Found at i:14137298 original size:19 final size:19
Alignment explanation
Indices: 14137271--14137308 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
14137261 CCATTTAACT
*
14137271 TATTAGAGTATGATTTGAG
1 TATTAGAGTATAATTTGAG
*
14137290 TATTGGAGTATAATTTGAG
1 TATTAGAGTATAATTTGAG
14137309 GGTTTGGCAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.26, T:0.42
Consensus pattern (19 bp):
TATTAGAGTATAATTTGAG
Found at i:14137520 original size:28 final size:27
Alignment explanation
Indices: 14137489--14137541 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
14137479 TTCAGTTTTT
*
14137489 GGGGCAAAAATGTAATTTTGCCACCTCG
1 GGGGCAAAAAGGTAATTTTG-CACCTCG
*
14137517 GGGGCAAAACGGTAATTTTGCACCT
1 GGGGCAAAAAGGTAATTTTGCACCT
14137542 GCAGAGCATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (27 bp):
GGGGCAAAAAGGTAATTTTGCACCTCG
Found at i:14138701 original size:13 final size:13
Alignment explanation
Indices: 14138683--14138707 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14138673 AGAGAAATTG
14138683 TGATTTTATAAAA
1 TGATTTTATAAAA
14138696 TGATTTTATAAA
1 TGATTTTATAAA
14138708 TTTTCTGGAA
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:14139932 original size:15 final size:16
Alignment explanation
Indices: 14139912--14139952 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
14139902 TAGAGATTTT
14139912 GATTTTAAAG-CTTTG
1 GATTTTAAAGTCTTTG
*
14139927 GATTTTAAAGTTTTTG
1 GATTTTAAAGTCTTTG
14139943 G-TTTTAAAGT
1 GATTTTAAAGT
14139953 TGTTTTAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 19 0.79
16 5 0.21
ACGTcount: A:0.27, C:0.02, G:0.20, T:0.51
Consensus pattern (16 bp):
GATTTTAAAGTCTTTG
Found at i:14139953 original size:15 final size:15
Alignment explanation
Indices: 14139908--14139953 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
14139898 AGATTAGAGA
*
14139908 TTTTGATTTTAAAG-
1 TTTTGGTTTTAAAGT
*
14139922 CTTTGGATTTTAAAGT
1 TTTTGG-TTTTAAAGT
14139938 TTTTGGTTTTAAAGT
1 TTTTGGTTTTAAAGT
14139953 T
1 T
14139954 GTTTTAAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 4 0.15
15 18 0.67
16 5 0.19
ACGTcount: A:0.24, C:0.02, G:0.17, T:0.57
Consensus pattern (15 bp):
TTTTGGTTTTAAAGT
Found at i:14143779 original size:19 final size:19
Alignment explanation
Indices: 14143755--14143792 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
14143745 CCTTTTAACT
*
14143755 TATTGGAGTATGATTTGAG
1 TATTGGAGTATAATTTGAG
14143774 TATTGGAGTATAATTTGAG
1 TATTGGAGTATAATTTGAG
14143793 GGTTTGGCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATAATTTGAG
Found at i:14145243 original size:13 final size:13
Alignment explanation
Indices: 14145225--14145249 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14145215 AGAGAAATTG
14145225 TGATTTTATAAAA
1 TGATTTTATAAAA
14145238 TGATTTTATAAA
1 TGATTTTATAAA
14145250 TTTTCTGAAA
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:14147902 original size:34 final size:34
Alignment explanation
Indices: 14147831--14147905 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 34
14147821 CTACAAAACA
*
14147831 TCTCCAATGATAAGGCATATCTTTATCCCCAAAG
1 TCTCCAATGATAAGGCATATCTTCATCCCCAAAG
* * * *
14147865 TCTCCAATGTTAGGGCATAT-TATCATCCTCAATG
1 TCTCCAATGATAAGGCATATCT-TCATCCCCAAAG
14147899 TCTCCAA
1 TCTCCAA
14147906 AGATTATCAC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
33 1 0.03
34 34 0.97
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (34 bp):
TCTCCAATGATAAGGCATATCTTCATCCCCAAAG
Found at i:14148696 original size:2 final size:2
Alignment explanation
Indices: 14148689--14148713 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
14148679 CATATCATTT
14148689 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
14148714 TATACATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:14151401 original size:68 final size:67
Alignment explanation
Indices: 14151300--14151549 Score: 259
Period size: 68 Copynumber: 3.7 Consensus size: 67
14151290 GATGAATGCC
* *
14151300 ATAAGATTATGTATATGATGTAAATCCCTTATACCATATGAGATGATTAAGTATGCATGATGTAT
1 ATAAGATTATGTATATGATGTAAATTCCATATACCATATGAGATGATTAAGTATGCATGATG-AT
14151365 ACT
65 ACT
* * * * * *
14151368 ATAAGATTATGTATATGATATAAATTCCATATACAATACGAGGTAATTAAGTATGCATGATAAAT
1 ATAAGATTATGTATATGATGTAAATTCCATATACCATATGAGATGATTAAGTATGCATGAT-GAT
*
14151433 GCCT
65 -ACT
* * * * * * * *
14151437 -TGAGATTATGTATATGATGTATATTCCATATACTACATGAGATGATTGAGAAAGCATGATGAAA
1 ATAAGATTATGTATATGATGTAAATTCCATATACCATATGAGATGATTAAGTATGCATGATGATA
*
14151501 GCC
66 -CT
* ** *
14151504 ATGAGATTATGTATATGATGTATTTTCCATATACCTTATGAGATGA
1 ATAAGATTATGTATATGATGTAAATTCCATATACCATATGAGATGA
14151550 GTAAACTTGT
Statistics
Matches: 150, Mismatches: 28, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
67 2 0.01
68 146 0.97
69 2 0.01
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (67 bp):
ATAAGATTATGTATATGATGTAAATTCCATATACCATATGAGATGATTAAGTATGCATGATGATA
CT
Found at i:14151580 original size:18 final size:18
Alignment explanation
Indices: 14151553--14151589 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
14151543 GAGATGAGTA
14151553 AACTTGTATGTGAAGGAC
1 AACTTGTATGTGAAGGAC
*
14151571 AACTTTTATGTGAAGGAC
1 AACTTGTATGTGAAGGAC
14151589 A
1 A
14151590 TTCTACATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (18 bp):
AACTTGTATGTGAAGGAC
Found at i:14159255 original size:36 final size:36
Alignment explanation
Indices: 14159215--14159283 Score: 84
Period size: 36 Copynumber: 1.9 Consensus size: 36
14159205 TTGTGCATTG
* *
14159215 TGTAATAGTTATCACTTGATCTCATGAAAAAGTCTA
1 TGTAAGAGTTATCACTTGATCCCATGAAAAAGTCTA
* ** *
14159251 TGTAAGGGTTATTGCTTGATCCCATTAAAAAGT
1 TGTAAGAGTTATCACTTGATCCCATGAAAAAGT
14159284 AAGAATCCTT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 27 1.00
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.36
Consensus pattern (36 bp):
TGTAAGAGTTATCACTTGATCCCATGAAAAAGTCTA
Found at i:14159857 original size:13 final size:13
Alignment explanation
Indices: 14159839--14159863 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14159829 TTGTGGGTAC
14159839 AAACATATGGAAG
1 AAACATATGGAAG
14159852 AAACATATGGAA
1 AAACATATGGAA
14159864 ATGTTTATTC
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:0.56, C:0.08, G:0.20, T:0.16
Consensus pattern (13 bp):
AAACATATGGAAG
Found at i:14168151 original size:20 final size:21
Alignment explanation
Indices: 14168110--14168159 Score: 75
Period size: 20 Copynumber: 2.4 Consensus size: 21
14168100 AAGCTTTTTT
* *
14168110 TCCTTTCTCTCTTTTTCTTTC
1 TCCTTTCTTTCTTTTCCTTTC
14168131 TCCTTTCTTTC-TTTCCTTTC
1 TCCTTTCTTTCTTTTCCTTTC
14168151 TCCTTTCTT
1 TCCTTTCTT
14168160 CCAACTGATC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 17 0.63
21 10 0.37
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (21 bp):
TCCTTTCTTTCTTTTCCTTTC
Found at i:14170408 original size:37 final size:37
Alignment explanation
Indices: 14170364--14170482 Score: 195
Period size: 37 Copynumber: 3.2 Consensus size: 37
14170354 AATGCAATAT
14170364 CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
* * *
14170401 CAACATCATGTGTGCACTCTCTACTCGCACAC-TCTAT
1 CATCATCATGTGTGCACTCCCTACTCGCACACTTC-AA
14170438 CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
14170475 CATCATCA
1 CATCATCA
14170483 CACAACATTA
Statistics
Matches: 74, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
36 2 0.03
37 70 0.95
38 2 0.03
ACGTcount: A:0.25, C:0.37, G:0.10, T:0.28
Consensus pattern (37 bp):
CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
Found at i:14180327 original size:11 final size:10
Alignment explanation
Indices: 14180300--14180346 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
14180290 CTTTTTCTTC
*
14180300 CTTTCTCTCT
1 CTTTCTTTCT
*
14180310 TTTTCTTTCT
1 CTTTCTTTCT
14180320 CATTTCTTTCT
1 C-TTTCTTTCT
*
14180331 -TTCCTTTCT
1 CTTTCTTTCT
14180340 CTTTCTT
1 CTTTCTT
14180347 CCAATTGATC
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
9 8 0.27
10 13 0.43
11 9 0.30
ACGTcount: A:0.02, C:0.30, G:0.00, T:0.68
Consensus pattern (10 bp):
CTTTCTTTCT
Found at i:14180331 original size:15 final size:14
Alignment explanation
Indices: 14180293--14180339 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
14180283 AACCAAGCTT
*
14180293 TTTCTTCCTTTCTC
1 TTTCTTTCTTTCTC
14180307 TCTT-TTTCTTTCTC
1 T-TTCTTTCTTTCTC
14180321 ATTTCTTTCTTTC-C
1 -TTTCTTTCTTTCTC
14180335 TTTCT
1 TTTCT
14180340 CTTTCTTCCA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
13 5 0.17
14 13 0.45
15 11 0.38
ACGTcount: A:0.02, C:0.30, G:0.00, T:0.68
Consensus pattern (14 bp):
TTTCTTTCTTTCTC
Found at i:14180342 original size:15 final size:15
Alignment explanation
Indices: 14180293--14180346 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
14180283 AACCAAGCTT
*
14180293 TTTCTTCCTTTCTC-
1 TTTCTTTCTTTCTCA
14180307 TCTT-TTTCTTTCTCA
1 T-TTCTTTCTTTCTCA
*
14180322 TTTCTTTCTTTC-CT
1 TTTCTTTCTTTCTCA
14180336 TTCTCTTTCTT
1 TT-TCTTTCTT
14180347 CCAATTGATC
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
14 15 0.44
15 19 0.56
ACGTcount: A:0.02, C:0.30, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTCTTTCTTTCTCA
Found at i:14189348 original size:14 final size:15
Alignment explanation
Indices: 14189329--14189367 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
14189319 TTTATTTTCA
*
14189329 TTTTCTTTTCC-TTG
1 TTTTCTTTTCCATTC
14189343 TTTTCTTTTCCATTC
1 TTTTCTTTTCCATTC
*
14189358 CTTTCTTTTC
1 TTTTCTTTTC
14189368 TTACTTCTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.03, C:0.26, G:0.03, T:0.69
Consensus pattern (15 bp):
TTTTCTTTTCCATTC
Found at i:14191803 original size:2 final size:2
Alignment explanation
Indices: 14191796--14191841 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
14191786 ACTATACATG
14191796 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14191838 TA TA
1 TA TA
14191842 AACACGAATA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14191997 original size:63 final size:63
Alignment explanation
Indices: 14191898--14192057 Score: 232
Period size: 63 Copynumber: 2.5 Consensus size: 63
14191888 GCACATTATT
* * * *
14191898 ACCGGCATGTGCACCGCCCACTTCGCACATGCACAGTTGTAAG-TGTCACAACATCATCATTCG
1 ACCGGCATATGCACTGCCCACTCCGCACATGCACAGTTGT-AGTTGTCACAACATCATCATTCA
* * *
14191961 ACCGGCATATACACTGCCCACTCCGCATATGCACAGTTGTAGTTGTCACAACATCGTCATTCA
1 ACCGGCATATGCACTGCCCACTCCGCACATGCACAGTTGTAGTTGTCACAACATCATCATTCA
*
14192024 ACCGGCATATGCACTGCCCACTCTGCACATGCAC
1 ACCGGCATATGCACTGCCCACTCCGCACATGCAC
14192058 GATTACATCA
Statistics
Matches: 86, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
62 2 0.02
63 84 0.98
ACGTcount: A:0.26, C:0.34, G:0.17, T:0.23
Consensus pattern (63 bp):
ACCGGCATATGCACTGCCCACTCCGCACATGCACAGTTGTAGTTGTCACAACATCATCATTCA
Found at i:14196600 original size:74 final size:73
Alignment explanation
Indices: 14196470--14196625 Score: 195
Period size: 74 Copynumber: 2.1 Consensus size: 73
14196460 GAGATGACTG
* * * * * * *
14196470 GTTAGTCGACTAAGAGCTCGCTGCTAGAAATTGGGATCAGAAGACAAAGACGACTTAATAAACTA
1 GTTAGTCAACCAAGAGCTCACTACCAGAAACTGGGATCAGAAGACAAAGACAACTTAATAAACTA
14196535 AGAAGCATT
66 AGAAGCA-T
* **
14196544 GTTAGTCAACCAAGAGCTCACTACCAGAAACTGGGATCAGAAGACAGAGACAACTTAATCGACTA
1 GTTAGTCAACCAAGAGCTCACTACCAGAAACTGGGATCAGAAGACAAAGACAACTTAATAAACTA
* *
14196609 ATAAGTAT
66 AGAAGCAT
14196617 GTTAGTCAA
1 GTTAGTCAA
14196626 TTAAGAGCAT
Statistics
Matches: 70, Mismatches: 12, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
73 10 0.14
74 60 0.86
ACGTcount: A:0.40, C:0.18, G:0.21, T:0.21
Consensus pattern (73 bp):
GTTAGTCAACCAAGAGCTCACTACCAGAAACTGGGATCAGAAGACAAAGACAACTTAATAAACTA
AGAAGCAT
Found at i:14198114 original size:43 final size:43
Alignment explanation
Indices: 14198049--14198175 Score: 209
Period size: 43 Copynumber: 3.0 Consensus size: 43
14198039 CAACTCTTTC
* * *
14198049 TCAGCTCACGTGCACTCCCACACCGCACATAACTGGGTCATCA
1 TCAGCTCATGTGCACTCTCACACCGCACATAGCTGGGTCATCA
14198092 TCAGCTCATGTGCACTCTCACACCGCACATAGCTGGGTCATCA
1 TCAGCTCATGTGCACTCTCACACCGCACATAGCTGGGTCATCA
* *
14198135 TCAGCTCATGTGCACTCTTACACTGCACATAGCTGGGTCAT
1 TCAGCTCATGTGCACTCTCACACCGCACATAGCTGGGTCAT
14198176 AATTATCACA
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 79 1.00
ACGTcount: A:0.24, C:0.35, G:0.18, T:0.24
Consensus pattern (43 bp):
TCAGCTCATGTGCACTCTCACACCGCACATAGCTGGGTCATCA
Found at i:14205340 original size:20 final size:20
Alignment explanation
Indices: 14205289--14205340 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
14205279 TGAAATGGCA
*
14205289 TGGGAGCATGAAAATGGTGT
1 TGGGAGCATGAAAATGGCGT
* **
14205309 TGGGTGGGTGAAAATGGCGT
1 TGGGAGCATGAAAATGGCGT
14205329 TGGGAGCATGAA
1 TGGGAGCATGAA
14205341 GGTGGAGGAG
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.27, C:0.06, G:0.44, T:0.23
Consensus pattern (20 bp):
TGGGAGCATGAAAATGGCGT
Found at i:14214383 original size:37 final size:37
Alignment explanation
Indices: 14214342--14214456 Score: 196
Period size: 37 Copynumber: 3.1 Consensus size: 37
14214332 CATATGCATT
14214342 CATCATCATGTGTGCACTCCCTACTCGCACAC-TCAAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACTTC-AA
14214379 CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
* *
14214416 CATCATTATGTGTGCACTCCCTACTTGCACACTTCAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
14214453 CATC
1 CATC
14214457 CTCACACAAC
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
37 73 0.97
38 2 0.03
ACGTcount: A:0.25, C:0.37, G:0.10, T:0.28
Consensus pattern (37 bp):
CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
Found at i:14215957 original size:22 final size:22
Alignment explanation
Indices: 14215931--14215974 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
14215921 AGGGGGAGAT
*
14215931 AGAAAGTAGAAGAAATTTAGGG
1 AGAAAGTAAAAGAAATTTAGGG
*
14215953 AGAAAGTAAAAGTAATTTAGGG
1 AGAAAGTAAAAGAAATTTAGGG
14215975 GTAATTTAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.30, T:0.20
Consensus pattern (22 bp):
AGAAAGTAAAAGAAATTTAGGG
Found at i:14216713 original size:21 final size:22
Alignment explanation
Indices: 14216680--14216723 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
14216670 TAACTAAAAC
** *
14216680 TCAAAAATGGAGATGAC-TAGT
1 TCAAAAACAGAGAAGACTTAGT
14216701 TCAAAAACAGAGAAGACTTAGT
1 TCAAAAACAGAGAAGACTTAGT
14216723 T
1 T
14216724 GACTAAGAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.45, C:0.11, G:0.20, T:0.23
Consensus pattern (22 bp):
TCAAAAACAGAGAAGACTTAGT
Found at i:14220622 original size:62 final size:63
Alignment explanation
Indices: 14220521--14220679 Score: 214
Period size: 62 Copynumber: 2.5 Consensus size: 63
14220511 GCACATGATT
* * * *
14220521 ACCAGCATGTGAACTCCCCACTCCGCATATGCACAGTTGTAAG-TGTCACAACATCGTCATTCG
1 ACCAGCATATGCACTGCCCACTCCGCATATGCACAGTTGT-AGTTGTCACAACATCGTCATTCA
* * *
14220584 ACCAG-ATATGCACTGCCCAGTCTGCATATGCACTGTTGTAGTTGTCACAACATCGTCATTCA
1 ACCAGCATATGCACTGCCCACTCCGCATATGCACAGTTGTAGTTGTCACAACATCGTCATTCA
* *
14220646 ACCGGCATATGCACTGCCCACTCCGCACATGCAC
1 ACCAGCATATGCACTGCCCACTCCGCATATGCAC
14220680 GGTTACATCA
Statistics
Matches: 83, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
61 2 0.02
62 51 0.61
63 30 0.36
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.24
Consensus pattern (63 bp):
ACCAGCATATGCACTGCCCACTCCGCATATGCACAGTTGTAGTTGTCACAACATCGTCATTCA
Found at i:14228320 original size:63 final size:63
Alignment explanation
Indices: 14228243--14228392 Score: 203
Period size: 63 Copynumber: 2.4 Consensus size: 63
14228233 TACCGGCAAG
* * * *
14228243 TGCACTGCCCACTCTGTACATGCACAGTTGTAAG-TGTCACAACATCATCATTCGACCAGCATA
1 TGCACTGCCCACTCTGCACATGCACAGTTGT-AGTTGTCACAACATCACCATTCAACCAACATA
* * * *
14228306 TGCACTACCCACTCTGCATATGCACGGTTGTAGTTGTCACAACATCGCCATTCAACCAACATA
1 TGCACTGCCCACTCTGCACATGCACAGTTGTAGTTGTCACAACATCACCATTCAACCAACATA
*
14228369 TGCACTGCCCACTCCGCACATGCA
1 TGCACTGCCCACTCTGCACATGCA
14228393 AGGTTACATT
Statistics
Matches: 75, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
62 2 0.03
63 73 0.97
ACGTcount: A:0.27, C:0.33, G:0.15, T:0.24
Consensus pattern (63 bp):
TGCACTGCCCACTCTGCACATGCACAGTTGTAGTTGTCACAACATCACCATTCAACCAACATA
Found at i:14229016 original size:81 final size:81
Alignment explanation
Indices: 14228838--14229002 Score: 197
Period size: 81 Copynumber: 2.0 Consensus size: 81
14228828 AGTCACACTA
* *
14228838 CAATGAATAACCCACCTCAACTACAAAACACTCACCGATCTAGCCACTAGCCATTCTCCACAACT
1 CAATCAATAACCCACCTCAACTACAAAACACTCACCGATCTAGCCACTAGCCATTCTCAACAACT
**********
14228903 TAAAAANNNNNNNNNN
66 TAAAAAAAAATCAACT
* *
14228919 NAATGAATAACCCACCTCAACTACAAAACACTCACCGATCTAGCCACTAGCCATTCTCAACAACT
1 CAATCAATAACCCACCTCAACTACAAAACACTCACCGATCTAGCCACTAGCCATTCTCAACAACT
14228984 T-AAAAAAAATCAACT
66 TAAAAAAAAATCAACT
14228999 CAAT
1 CAAT
14229003 TTCACTACTC
Statistics
Matches: 71, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
80 7 0.10
81 64 0.90
ACGTcount: A:0.40, C:0.31, G:0.05, T:0.18
Consensus pattern (81 bp):
CAATCAATAACCCACCTCAACTACAAAACACTCACCGATCTAGCCACTAGCCATTCTCAACAACT
TAAAAAAAAATCAACT
Found at i:14236875 original size:2 final size:2
Alignment explanation
Indices: 14236868--14236907 Score: 71
Period size: 2 Copynumber: 19.5 Consensus size: 2
14236858 TATTTTTCAG
14236868 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TGA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA T
14236908 GTGAAATGTG
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 35 0.95
3 2 0.05
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14243399 original size:15 final size:16
Alignment explanation
Indices: 14243379--14243411 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
14243369 GACCGTATTG
14243379 CACTGAAAGGC-TTGT
1 CACTGAAAGGCTTTGT
*
14243394 CACTGAAGGGCTTTGT
1 CACTGAAAGGCTTTGT
14243410 CA
1 CA
14243412 AATTCTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (16 bp):
CACTGAAAGGCTTTGT
Found at i:14254686 original size:28 final size:30
Alignment explanation
Indices: 14254630--14254688 Score: 88
Period size: 27 Copynumber: 2.1 Consensus size: 30
14254620 TTTTTGAAAT
14254630 TTACACTTTTGCCCCCATAAAAGTGAAAAA
1 TTACACTTTTGCCCCCATAAAAGTGAAAAA
*
14254660 TTACA-TTTTG-CCCCA-AAAATTGAAAAA
1 TTACACTTTTGCCCCCATAAAAGTGAAAAA
14254687 TT
1 TT
14254689 GCCCATAGAC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 13 0.46
28 5 0.18
29 5 0.18
30 5 0.18
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (30 bp):
TTACACTTTTGCCCCCATAAAAGTGAAAAA
Found at i:14256571 original size:21 final size:20
Alignment explanation
Indices: 14256545--14256583 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
14256535 TAAATTAAAA
14256545 AAAATAAAGTAAAATTAATCT
1 AAAATAAA-TAAAATTAATCT
*
14256566 AAAATAAATTAAATTAAT
1 AAAATAAATAAAATTAAT
14256584 TACTCAACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (20 bp):
AAAATAAATAAAATTAATCT
Found at i:14257472 original size:21 final size:22
Alignment explanation
Indices: 14257447--14257487 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
14257437 CCTAGGTGGA
14257447 AAAATTCAAGGAAA-AAGTGTG
1 AAAATTCAAGGAAACAAGTGTG
14257468 AAAATTCAAGGAAACAAGTG
1 AAAATTCAAGGAAACAAGTG
14257488 AAAAAAAGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.54, C:0.07, G:0.22, T:0.17
Consensus pattern (22 bp):
AAAATTCAAGGAAACAAGTGTG
Found at i:14257493 original size:22 final size:21
Alignment explanation
Indices: 14257446--14257493 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
14257436 CCCTAGGTGG
*
14257446 AAAAATTCAAGGAAAAAGTGT
1 AAAAATTCAAGGAAAAAGTGA
*
14257467 GAAAATTCAAGGAAACAAGTGA
1 AAAAATTCAAGGAAA-AAGTGA
14257489 AAAAA
1 AAAAA
14257494 AGGTAAGATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.60, C:0.06, G:0.19, T:0.15
Consensus pattern (21 bp):
AAAAATTCAAGGAAAAAGTGA
Found at i:14257727 original size:35 final size:35
Alignment explanation
Indices: 14257681--14257750 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
14257671 ATGTGTAGTA
14257681 TGAAAAGCCAACAAGAAAAATTCACTTCCTCCCAT
1 TGAAAAGCCAACAAGAAAAATTCACTTCCTCCCAT
14257716 TGAAAAGCCAACAAGAAAAATTCACTTCCTCCCAT
1 TGAAAAGCCAACAAGAAAAATTCACTTCCTCCCAT
14257751 CACTCATCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.43, C:0.29, G:0.09, T:0.20
Consensus pattern (35 bp):
TGAAAAGCCAACAAGAAAAATTCACTTCCTCCCAT
Found at i:14271962 original size:13 final size:13
Alignment explanation
Indices: 14271944--14271973 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
14271934 TAACTAACAA
14271944 TGGATAAAAAGAT
1 TGGATAAAAAGAT
*
14271957 TGGATATAAAGAT
1 TGGATAAAAAGAT
14271970 TGGA
1 TGGA
14271974 GTGTAAGTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.27, T:0.27
Consensus pattern (13 bp):
TGGATAAAAAGAT
Found at i:14276130 original size:2 final size:2
Alignment explanation
Indices: 14276123--14276170 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
14276113 ATACAAAAAT
14276123 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14276165 TA TA TA
1 TA TA TA
14276171 CATTTTACAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14293666 original size:22 final size:21
Alignment explanation
Indices: 14293627--14293667 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
14293617 CCTAGGTGGA
**
14293627 AAAATTCAAGGGAAAAGTGTG
1 AAAATTCAAGAAAAAAGTGTG
14293648 AAAATTCAAGAAAACAAGTG
1 AAAATTCAAGAAAA-AAGTG
14293668 ACAAAAGGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.54, C:0.07, G:0.22, T:0.17
Consensus pattern (21 bp):
AAAATTCAAGAAAAAAGTGTG
Found at i:14295220 original size:38 final size:40
Alignment explanation
Indices: 14295131--14295233 Score: 138
Period size: 38 Copynumber: 2.6 Consensus size: 40
14295121 ACCCGGCTCA
*
14295131 TGTACATCCCCCCACATCGTGCACATAGCCGGCGCCATCG
1 TGTACATCCCCCCACATCGTGCACATAGCCAGCGCCATCG
* * *
14295171 TGTGCATCCCCCCACATCGTGCACA-A-TCAGTGCCATCG
1 TGTACATCCCCCCACATCGTGCACATAGCCAGCGCCATCG
* *
14295209 TGTACAACCCCCCACATCATGCACA
1 TGTACATCCCCCCACATCGTGCACA
14295234 CGGGCACTAT
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
38 31 0.55
39 1 0.02
40 24 0.43
ACGTcount: A:0.23, C:0.42, G:0.17, T:0.18
Consensus pattern (40 bp):
TGTACATCCCCCCACATCGTGCACATAGCCAGCGCCATCG
Found at i:14304751 original size:26 final size:26
Alignment explanation
Indices: 14304691--14304752 Score: 115
Period size: 26 Copynumber: 2.4 Consensus size: 26
14304681 ACCATATACC
*
14304691 CATCATCAACATGCACACCATCCCAT
1 CATCATCATCATGCACACCATCCCAT
14304717 CATCATCATCATGCACACCATCCCAT
1 CATCATCATCATGCACACCATCCCAT
14304743 CATCATCATC
1 CATCATCATC
14304753 TCATATGCAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.32, C:0.42, G:0.03, T:0.23
Consensus pattern (26 bp):
CATCATCATCATGCACACCATCCCAT
Found at i:14304827 original size:42 final size:42
Alignment explanation
Indices: 14304759--14305131 Score: 523
Period size: 42 Copynumber: 8.9 Consensus size: 42
14304749 CATCTCATAT
* * *
14304759 GCAACGGCTTATGCGTACTCCTACTCGCATATAGCCGGGTCA
1 GCAACGGCTTATGTGCACTCCTACTCGCACATAGCCGGGTCA
* * *
14304801 GCAACGGCTTATGTGCTCTCCCACTCGCACATAGCCAGGTCA
1 GCAACGGCTTATGTGCACTCCTACTCGCACATAGCCGGGTCA
*
14304843 GCAACGGCTTATGTGCACTCCTACTCACACATAGCCGGGTCA
1 GCAACGGCTTATGTGCACTCCTACTCGCACATAGCCGGGTCA
* *
14304885 GCAACGGCTTATGTGTACTTCC-ACTCACACATAGCCGGGTCA
1 GCAACGGCTTATGTGCAC-TCCTACTCGCACATAGCCGGGTCA
* * * *
14304927 GCAATGACTTATGTGCACTCTTACTCGCATATAGCCGGGTCA
1 GCAACGGCTTATGTGCACTCCTACTCGCACATAGCCGGGTCA
* * * *
14304969 ACAACGGCTTATGTGCACTCCCACTCACACATAGCCGGGTTA
1 GCAACGGCTTATGTGCACTCCTACTCGCACATAGCCGGGTCA
14305011 GCAACGGCTTATGTGCACTCCTACTCGCACATAGCCGGGTCA
1 GCAACGGCTTATGTGCACTCCTACTCGCACATAGCCGGGTCA
* * * *
14305053 GTAACGGCTTATGTGTACTCCCACTCACACATAGCCGGGTCA
1 GCAACGGCTTATGTGCACTCCTACTCGCACATAGCCGGGTCA
* *
14305095 ACAACGGCTTATGTGCACTCCTACTTGCACATAGCCG
1 GCAACGGCTTATGTGCACTCCTACTCGCACATAGCCG
14305132 AGTCGAAGTC
Statistics
Matches: 290, Mismatches: 39, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
41 2 0.01
42 285 0.98
43 3 0.01
ACGTcount: A:0.23, C:0.32, G:0.21, T:0.23
Consensus pattern (42 bp):
GCAACGGCTTATGTGCACTCCTACTCGCACATAGCCGGGTCA
Found at i:14304909 original size:84 final size:84
Alignment explanation
Indices: 14304759--14305131 Score: 577
Period size: 84 Copynumber: 4.4 Consensus size: 84
14304749 CATCTCATAT
* * *
14304759 GCAACGGCTTATGCGTACTCCTACTCGCATATAGCCGGGTCAGCAACGGCTTATGTGCT-CTCCC
1 GCAACGGCTTATGTGCACTCCTACTCGCACATAGCCGGGTCAGCAACGGCTTATGTG-TACTCCC
* *
14304823 ACTCGCACATAGCCAGGTCA
65 ACTCACACATAGCCGGGTCA
* *
14304843 GCAACGGCTTATGTGCACTCCTACTCACACATAGCCGGGTCAGCAACGGCTTATGTGTACTTCCA
1 GCAACGGCTTATGTGCACTCCTACTCGCACATAGCCGGGTCAGCAACGGCTTATGTGTACTCCCA
14304908 CTCACACATAGCCGGGTCA
66 CTCACACATAGCCGGGTCA
* * * * * *
14304927 GCAATGACTTATGTGCACTCTTACTCGCATATAGCCGGGTCAACAACGGCTTATGTGCACTCCCA
1 GCAACGGCTTATGTGCACTCCTACTCGCACATAGCCGGGTCAGCAACGGCTTATGTGTACTCCCA
*
14304992 CTCACACATAGCCGGGTTA
66 CTCACACATAGCCGGGTCA
*
14305011 GCAACGGCTTATGTGCACTCCTACTCGCACATAGCCGGGTCAGTAACGGCTTATGTGTACTCCCA
1 GCAACGGCTTATGTGCACTCCTACTCGCACATAGCCGGGTCAGCAACGGCTTATGTGTACTCCCA
14305076 CTCACACATAGCCGGGTCA
66 CTCACACATAGCCGGGTCA
* *
14305095 ACAACGGCTTATGTGCACTCCTACTTGCACATAGCCG
1 GCAACGGCTTATGTGCACTCCTACTCGCACATAGCCG
14305132 AGTCGAAGTC
Statistics
Matches: 262, Mismatches: 26, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
83 1 0.00
84 261 1.00
ACGTcount: A:0.23, C:0.32, G:0.21, T:0.23
Consensus pattern (84 bp):
GCAACGGCTTATGTGCACTCCTACTCGCACATAGCCGGGTCAGCAACGGCTTATGTGTACTCCCA
CTCACACATAGCCGGGTCA
Found at i:14305647 original size:58 final size:58
Alignment explanation
Indices: 14305557--14305675 Score: 238
Period size: 58 Copynumber: 2.1 Consensus size: 58
14305547 TTTCATCTGA
14305557 TAAATTGGCCAATGCATCCAATTTCACTCCAAATTAATCCATTTCTCCTCTAATACCT
1 TAAATTGGCCAATGCATCCAATTTCACTCCAAATTAATCCATTTCTCCTCTAATACCT
14305615 TAAATTGGCCAATGCATCCAATTTCACTCCAAATTAATCCATTTCTCCTCTAATACCT
1 TAAATTGGCCAATGCATCCAATTTCACTCCAAATTAATCCATTTCTCCTCTAATACCT
14305673 TAA
1 TAA
14305676 TTTAAATAAA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 61 1.00
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (58 bp):
TAAATTGGCCAATGCATCCAATTTCACTCCAAATTAATCCATTTCTCCTCTAATACCT
Found at i:14307796 original size:61 final size:61
Alignment explanation
Indices: 14307701--14307982 Score: 413
Period size: 61 Copynumber: 4.6 Consensus size: 61
14307691 AGCTCATGTA
* * * * * * *
14307701 CATCATCACCGACATGTGCACTGCCCACTCCGCACATGCATGGTTATAATTATCAAGACAA
1 CATCATTACCGGCATGTGCACTGCCCACTTCGCACATGCACGGTTATAACTATCACGACAT
* * *
14307762 CATCATTATCGGCATGTGCACTGCCCATTTCGCACATGCACGGTTGTAACTATCACGACAT
1 CATCATTACCGGCATGTGCACTGCCCACTTCGCACATGCACGGTTATAACTATCACGACAT
14307823 CATCATTACCGGCATGTGCACTGCCCAC-TCTGCACATGCACGGTTATAACTATCACGACAT
1 CATCATTACCGGCATGTGCACTGCCCACTTC-GCACATGCACGGTTATAACTATCACGACAT
* * *
14307884 CATCATTACCGGCATGTGCACTGCCCACTTTGCACATGCACGGTTGTAACTATCACGACAG
1 CATCATTACCGGCATGTGCACTGCCCACTTCGCACATGCACGGTTATAACTATCACGACAT
* *
14307945 CATCATTACCGGCATGTGCACTACCCACTCCGCACATG
1 CATCATTACCGGCATGTGCACTGCCCACTTCGCACATG
14307983 TACAGTGTTA
Statistics
Matches: 200, Mismatches: 19, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
60 2 0.01
61 197 0.99
62 1 0.00
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.24
Consensus pattern (61 bp):
CATCATTACCGGCATGTGCACTGCCCACTTCGCACATGCACGGTTATAACTATCACGACAT
Found at i:14307858 original size:122 final size:122
Alignment explanation
Indices: 14307701--14307982 Score: 458
Period size: 122 Copynumber: 2.3 Consensus size: 122
14307691 AGCTCATGTA
* * * *
14307701 CATCATCACCGACATGTGCACTGCCCACTCCGCACATGCATGGTTATAATTATCAAGACAACATC
1 CATCATTACCGGCATGTGCACTGCCCACTCCGCACATGCACGGTTATAACTATCAAGACAACATC
* *
14307766 ATTATCGGCATGTGCACTGCCCA-TTTCGCACATGCACGGTTGTAACTATCACGACAT
66 ATTACCGGCATGTGCACTGCCCACTTT-GCACATGCACGGTTGTAACTATCACGACAG
* * *
14307823 CATCATTACCGGCATGTGCACTGCCCACTCTGCACATGCACGGTTATAACTATCACGACATCATC
1 CATCATTACCGGCATGTGCACTGCCCACTCCGCACATGCACGGTTATAACTATCAAGACAACATC
14307888 ATTACCGGCATGTGCACTGCCCACTTTGCACATGCACGGTTGTAACTATCACGACAG
66 ATTACCGGCATGTGCACTGCCCACTTTGCACATGCACGGTTGTAACTATCACGACAG
*
14307945 CATCATTACCGGCATGTGCACTACCCACTCCGCACATG
1 CATCATTACCGGCATGTGCACTGCCCACTCCGCACATG
14307983 TACAGTGTTA
Statistics
Matches: 148, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
122 145 0.98
123 3 0.02
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.24
Consensus pattern (122 bp):
CATCATTACCGGCATGTGCACTGCCCACTCCGCACATGCACGGTTATAACTATCAAGACAACATC
ATTACCGGCATGTGCACTGCCCACTTTGCACATGCACGGTTGTAACTATCACGACAG
Found at i:14315097 original size:61 final size:61
Alignment explanation
Indices: 14314919--14315086 Score: 221
Period size: 61 Copynumber: 2.8 Consensus size: 61
14314909 AGCTCATGTA
* * * * * *
14314919 CATCATCACCTGCATGTGCACTA-CCTACTCCGCACATGTACAGTTGTAATTATCACGATAG
1 CATCATTACCGGCATGTGCAC-AGCCCACTCCGCACATGCACGGTTGTAATTATCACAATAG
* * * *
14314980 CATCATTATCGGCATGTGCACTGCTCACTCCGCACATGCACGATTGTAATTATCACAATAG
1 CATCATTACCGGCATGTGCACAGCCCACTCCGCACATGCACGGTTGTAATTATCACAATAG
*
14315041 CATCATTACCGGCATGTGCACAGCCCACTCCGTACATGCACGGTTG
1 CATCATTACCGGCATGTGCACAGCCCACTCCGCACATGCACGGTTG
14315087 CATTTGTCAC
Statistics
Matches: 91, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
61 91 1.00
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.26
Consensus pattern (61 bp):
CATCATTACCGGCATGTGCACAGCCCACTCCGCACATGCACGGTTGTAATTATCACAATAG
Found at i:14322856 original size:56 final size:56
Alignment explanation
Indices: 14322751--14322858 Score: 130
Period size: 56 Copynumber: 1.9 Consensus size: 56
14322741 TAATTTTGAC
***
14322751 TAATTAGTATATTAATAAGTATACTATATATTGTACTTGTTATACTATATATGGAT
1 TAATTAGTATATTAATAAGTATACTATATATTGTACTTAAGATACTATATATGGAT
* * *
14322807 TAATTAGTGTATTAATAAGTGTACTATGTATGTTGTA-TTAAGATA-TATATAT
1 TAATTAGTATATTAATAAGTATACTA--TATATTGTACTTAAGATACTATATAT
14322859 TAGATAATGT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
56 31 0.70
57 5 0.11
58 8 0.18
ACGTcount: A:0.37, C:0.04, G:0.13, T:0.46
Consensus pattern (56 bp):
TAATTAGTATATTAATAAGTATACTATATATTGTACTTAAGATACTATATATGGAT
Found at i:14323657 original size:21 final size:22
Alignment explanation
Indices: 14323628--14323668 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
14323618 CCTAGGTGGA
*
14323628 AAAAGTCAAGGGAA-AAGTGTG
1 AAAAGTCAAGGAAACAAGTGTG
*
14323649 AAAATTCAAGGAAACAAGTG
1 AAAAGTCAAGGAAACAAGTG
14323669 AAAAAAAGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.51, C:0.07, G:0.27, T:0.15
Consensus pattern (22 bp):
AAAAGTCAAGGAAACAAGTGTG
Found at i:14323673 original size:21 final size:20
Alignment explanation
Indices: 14323626--14323673 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
14323616 ACCCTAGGTG
*
14323626 GAAAAAGTCAAGGGAAAAGT
1 GAAAAAGTCAAGGAAAAAGT
* *
14323646 GTGAAAATTCAAGGAAACAAGT
1 G-AAAAAGTCAAGGAAA-AAGT
14323668 GAAAAA
1 GAAAAA
14323674 AAGGTGAGAT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
20 1 0.05
21 16 0.73
22 5 0.23
ACGTcount: A:0.56, C:0.06, G:0.25, T:0.12
Consensus pattern (20 bp):
GAAAAAGTCAAGGAAAAAGT
Found at i:14325978 original size:21 final size:24
Alignment explanation
Indices: 14325930--14325978 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
14325920 TTCTAGTACA
*
14325930 ATATATAGTGTATTAATATATTACT
1 ATATATAGTGTAATAATATATTA-T
14325955 ATATATAGT-TAAT-ATATATT-T
1 ATATATAGTGTAATAATATATTAT
14325976 ATA
1 ATA
14325979 CAGTATATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 4 0.17
23 7 0.30
24 3 0.13
25 9 0.39
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (24 bp):
ATATATAGTGTAATAATATATTAT
Found at i:14326300 original size:16 final size:16
Alignment explanation
Indices: 14326281--14326321 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
14326271 TATACAAAGT
**
14326281 TTAATATATTAATAAG
1 TTAATATAAAAATAAG
14326297 TTAATATAAAAATAAG
1 TTAATATAAAAATAAG
14326313 TTAATATAA
1 TTAATATAA
14326322 TAAGTTGCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (16 bp):
TTAATATAAAAATAAG
Found at i:14329885 original size:22 final size:22
Alignment explanation
Indices: 14329854--14329896 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
14329844 GCGAGTGGTA
*
14329854 TCAGAGCATTTGGTTTTAAAGG
1 TCAGAACATTTGGTTTTAAAGG
14329876 TCAGAACATTTGGTTTTAAAG
1 TCAGAACATTTGGTTTTAAAG
14329897 TTGTTTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.37
Consensus pattern (22 bp):
TCAGAACATTTGGTTTTAAAGG
Found at i:14337121 original size:20 final size:20
Alignment explanation
Indices: 14337064--14337126 Score: 101
Period size: 20 Copynumber: 3.2 Consensus size: 20
14337054 TATATACCCA
*
14337064 TCATCATCATC-TCACCAAC
1 TCATCATCATCATCACCAGC
*
14337083 CCATCATCATCATCACCAGC
1 TCATCATCATCATCACCAGC
14337103 TCATCATCATCATCACCAGC
1 TCATCATCATCATCACCAGC
14337123 TCAT
1 TCAT
14337127 GCGCACTCCC
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
19 10 0.25
20 30 0.75
ACGTcount: A:0.30, C:0.41, G:0.03, T:0.25
Consensus pattern (20 bp):
TCATCATCATCATCACCAGC
Found at i:14337173 original size:43 final size:43
Alignment explanation
Indices: 14337125--14337243 Score: 168
Period size: 43 Copynumber: 2.8 Consensus size: 43
14337115 TCACCAGCTC
** * *
14337125 ATGCGCACTCCCTACTCGCACATGGCTGGGTCATCAC-CGGGTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATC-CTCGGCTT
14337168 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
* *
14337211 ATGCGCACTCCCTACTCGCACATAGCCGAGTCA
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCA
14337244 ACATAATTAC
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
42 1 0.01
43 68 0.99
ACGTcount: A:0.19, C:0.38, G:0.21, T:0.22
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
Found at i:14341480 original size:23 final size:23
Alignment explanation
Indices: 14341454--14341514 Score: 63
Period size: 23 Copynumber: 2.6 Consensus size: 23
14341444 GCCCATAACT
*
14341454 AAGAAGAAAGAGAAAG-GAGAGGA
1 AAGAAGAAAGA-AAAGAGAAAGGA
14341477 AAGAA-AGAAGAAAAGAGAAAGGA
1 AAGAAGA-AAGAAAAGAGAAAGGA
14341500 AAGACAAGAAAGAAA
1 AAG--AAGAAAGAAA
14341515 GAAAGAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
22 5 0.16
23 18 0.56
25 8 0.25
26 1 0.03
ACGTcount: A:0.67, C:0.02, G:0.31, T:0.00
Consensus pattern (23 bp):
AAGAAGAAAGAAAAGAGAAAGGA
Found at i:14341482 original size:4 final size:4
Alignment explanation
Indices: 14341475--14341522 Score: 55
Period size: 4 Copynumber: 12.0 Consensus size: 4
14341465 GAAAGGAGAG
*
14341475 GAAA GAAA G-AA GAAA -AGA GAAA GGAAA GACAA GAAA GAAA GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA -GAAA GA-AA GAAA GAAA GAAA GAAA
14341523 AAGAGAGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
3 5 0.13
4 25 0.66
5 8 0.21
ACGTcount: A:0.71, C:0.02, G:0.27, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:14341491 original size:28 final size:27
Alignment explanation
Indices: 14341454--14341533 Score: 94
Period size: 28 Copynumber: 3.0 Consensus size: 27
14341444 GCCCATAACT
14341454 AAGAAG-AAAGAGAAAGGAGAGGAAAGA
1 AAGAAGAAAAGAGAAAGGAGA-GAAAGA
*
14341481 AAGAAGAAAAGAGAAAGGAAAGACAAGA
1 AAGAAGAAAAGAGAAAGGAGAGA-AAGA
*
14341509 AAGAA-AGAAAGA-AAAAGAGAGAAAG
1 AAGAAGA-AAAGAGAAAGGAGAGAAAG
14341534 GAAGGAAAGG
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
26 3 0.06
27 17 0.36
28 27 0.57
ACGTcount: A:0.68, C:0.01, G:0.31, T:0.00
Consensus pattern (27 bp):
AAGAAGAAAAGAGAAAGGAGAGAAAGA
Found at i:14343033 original size:16 final size:16
Alignment explanation
Indices: 14343012--14343042 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
14343002 GTCAAATGCG
14343012 ACAACGAATCTTCGCT
1 ACAACGAATCTTCGCT
14343028 ACAACGAATCTTCGC
1 ACAACGAATCTTCGC
14343043 GACGTTGGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.32, G:0.13, T:0.23
Consensus pattern (16 bp):
ACAACGAATCTTCGCT
Found at i:14351628 original size:43 final size:40
Alignment explanation
Indices: 14351563--14351709 Score: 123
Period size: 43 Copynumber: 3.7 Consensus size: 40
14351553 AATATCATCA
*
14351563 TCATGTGCACTCCCTAC-TCGCACATAGCAGGGTCGTCATCAGC
1 TCATGTGCACTCCC-ACACCGCACATAGCA--GTC-TCATCAGC
*
14351606 TCATGTGCACTCCCACACCGCACATA--A----C-T-AGG
1 TCATGTGCACTCCCACACCGCACATAGCAGTCTCATCAGC
*
14351638 TCATTGTGCACTCCCACACCGCACATAGCTGAATCATCATCAGC
1 TCA-TGTGCACTCCCACACCGCACATAGC--AGTC-TCATCAGC
*
14351682 TCATGTGCACTCCCACACCACACATAGC
1 TCATGTGCACTCCCACACCGCACATAGC
14351710 TAGGTCATCA
Statistics
Matches: 87, Mismatches: 4, Indels: 26
0.74 0.03 0.22
Matches are distributed among these distances:
32 5 0.06
33 24 0.28
34 1 0.01
37 1 0.01
41 1 0.01
42 3 0.03
43 47 0.54
44 5 0.06
ACGTcount: A:0.26, C:0.37, G:0.16, T:0.21
Consensus pattern (40 bp):
TCATGTGCACTCCCACACCGCACATAGCAGTCTCATCAGC
Found at i:14351665 original size:76 final size:76
Alignment explanation
Indices: 14351566--14351717 Score: 225
Period size: 76 Copynumber: 2.0 Consensus size: 76
14351556 ATCATCATCA
* ** * *
14351566 TGTGCACTCCCTACTCGCACATAGCAGGGTCGTCATCAGCTCATGTGCACTCCCACACCGCACAT
1 TGTGCACTCCCTACCCGCACATAGCAGAATCATCATCAGCTCATGTGCACTCCCACACCACACAT
14351631 AACTAGGTCAT
66 AACTAGGTCAT
*
14351642 TGTGCACTCCC-ACACCGCACATAGCTGAATCATCATCAGCTCATGTGCACTCCCACACCACACA
1 TGTGCACTCCCTAC-CCGCACATAGCAGAATCATCATCAGCTCATGTGCACTCCCACACCACACA
*
14351706 TAGCTAGGTCAT
65 TAACTAGGTCAT
14351718 CATTATCACA
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
75 2 0.03
76 66 0.97
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (76 bp):
TGTGCACTCCCTACCCGCACATAGCAGAATCATCATCAGCTCATGTGCACTCCCACACCACACAT
AACTAGGTCAT
Found at i:14365336 original size:18 final size:18
Alignment explanation
Indices: 14365313--14365361 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 18
14365303 CGGAAAGGCA
*
14365313 TTCTCACTAAACGAGGGT
1 TTCTCACTAAACAAGGGT
***
14365331 TTCTCAACTGGTCAAGGGT
1 TTCTC-ACTAAACAAGGGT
14365350 TTCTCACTAAAC
1 TTCTCACTAAAC
14365362 CTCCCCATTT
Statistics
Matches: 23, Mismatches: 7, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
18 9 0.39
19 14 0.61
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (18 bp):
TTCTCACTAAACAAGGGT
Found at i:14366071 original size:38 final size:38
Alignment explanation
Indices: 14365985--14366089 Score: 131
Period size: 38 Copynumber: 2.7 Consensus size: 38
14365975 ACCCGGCTCA
*
14365985 TGTACATCCCCCCACATCGTGCACATAGCCGGCACCATCG
1 TGTACATCCCCCCACATCGTGCACA-AGCAGG-ACCATCG
* *
14366025 TGTGCATCCCCCCACATCGTGCACAATCAGTG-CCATCG
1 TGTACATCCCCCCACATCGTGCACAAGCAG-GACCATCG
* *
14366063 TGTACATCCCCCCACATTGAGCACAAG
1 TGTACATCCCCCCACATCGTGCACAAG
14366090 GGCACTATCA
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
38 29 0.51
39 3 0.05
40 25 0.44
ACGTcount: A:0.24, C:0.40, G:0.17, T:0.19
Consensus pattern (38 bp):
TGTACATCCCCCCACATCGTGCACAAGCAGGACCATCG
Found at i:14380232 original size:23 final size:22
Alignment explanation
Indices: 14380206--14380250 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 22
14380196 CTTATGCTCT
14380206 TTCACTCTCTCACCTTAAAACC
1 TTCACTCTCTCACCTTAAAACC
*
14380228 NTTCACTCTCTCACTTTAAAACC
1 -TTCACTCTCTCACCTTAAAACC
14380251 CTTGAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.27, C:0.38, G:0.00, T:0.33
Consensus pattern (22 bp):
TTCACTCTCTCACCTTAAAACC
Found at i:14380998 original size:42 final size:41
Alignment explanation
Indices: 14380952--14381073 Score: 115
Period size: 42 Copynumber: 2.9 Consensus size: 41
14380942 TGGACTCGGT
* *
14380952 TATGTGCGAGTAAGAGTGCGCATACA-CTGATGATGA-CTTGGC
1 TATGTGCGAGTAAGAGTGCGCATA-AGCCGATGATGACCAT--C
* *
14380994 TATGTGAGAGT-AGAAGTGGGCATAAGCCGATGATGAGCCATC
1 TATGTGCGAGTAAG-AGTGCGCATAAGCCGATGATGA-CCATC
* * *
14381036 TATGTGCGAGTAGGAGTGCGCATAAGCCAATGCTGACC
1 TATGTGCGAGTAAGAGTGCGCATAAGCCGATGATGACC
14381074 CAGCCATGTG
Statistics
Matches: 66, Mismatches: 9, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
41 5 0.08
42 58 0.88
43 1 0.02
44 2 0.03
ACGTcount: A:0.28, C:0.17, G:0.32, T:0.23
Consensus pattern (41 bp):
TATGTGCGAGTAAGAGTGCGCATAAGCCGATGATGACCATC
Found at i:14381083 original size:42 final size:42
Alignment explanation
Indices: 14380995--14381083 Score: 106
Period size: 42 Copynumber: 2.1 Consensus size: 42
14380985 TGACTTGGCT
* * * * *
14380995 ATGTGAGAGTAGAAGTGGGCATAAGCCGATGATGAGCCATCT
1 ATGTGAGAGTAGAAGTGCGCATAAGCCAATGATGACCCAGCC
* * *
14381037 ATGTGCGAGTAGGAGTGCGCATAAGCCAATGCTGACCCAGCC
1 ATGTGAGAGTAGAAGTGCGCATAAGCCAATGATGACCCAGCC
14381079 ATGTG
1 ATGTG
14381084 TTAGTGGGGA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.28, C:0.19, G:0.33, T:0.20
Consensus pattern (42 bp):
ATGTGAGAGTAGAAGTGCGCATAAGCCAATGATGACCCAGCC
Found at i:14384699 original size:35 final size:33
Alignment explanation
Indices: 14384577--14384824 Score: 179
Period size: 35 Copynumber: 7.4 Consensus size: 33
14384567 ACCAAGCTTT
* *
14384577 ACAATGGCTTTT-ACAAGGCTCAACCAAAACCTTTT
1 ACAATGGTTTTTCA-AAGGCTCAACCAAAACC--TC
* * ** * * *
14384612 ACATTAGTTTTTCACGGGTTAAACTAAAACC-C
1 ACAATGGTTTTTCAAAGGCTCAACCAAAACCTC
*
14384644 A-AAGTGGTTTTTCAAAGGCTCAACCATAACCTTTC
1 ACAA-TGGTTTTTCAAAGGCTCAACCAAAACC--TC
**
14384679 ACAATGGTTTTTCACGGGCTCAACCAAAACC-C
1 ACAATGGTTTTTCAAAGGCTCAACCAAAACCTC
*
14384711 A-AAGTGGTTTTTCAAAGGCTCAACCATAACCTAC
1 ACAA-TGGTTTTTCAAAGGCTCAACCAAAACCT-C
*
14384745 AACAATGGTTTTTCACAA-TCTCAACCAAAACC-C
1 -ACAATGGTTTTTCA-AAGGCTCAACCAAAACCTC
* *
14384778 A-AAGTGGTTTTTAAAAGGCTCAACCATAACCTAC
1 ACAA-TGGTTTTTCAAAGGCTCAACCAAAACCT-C
14384812 AACAATGGTTTTT
1 -ACAATGGTTTTT
14384825 ACCGGGATCA
Statistics
Matches: 167, Mismatches: 28, Indels: 36
0.72 0.12 0.16
Matches are distributed among these distances:
31 7 0.04
32 69 0.41
33 1 0.01
34 2 0.01
35 79 0.47
36 9 0.05
ACGTcount: A:0.35, C:0.24, G:0.13, T:0.28
Consensus pattern (33 bp):
ACAATGGTTTTTCAAAGGCTCAACCAAAACCTC
Found at i:14384708 original size:67 final size:67
Alignment explanation
Indices: 14384591--14384846 Score: 336
Period size: 67 Copynumber: 3.8 Consensus size: 67
14384581 TGGCTTTTAC
* *** * * * * *
14384591 AAGGCTCAACCAAAACCTTTTACATTAGTTTTTCACGGGTTAAACTAAAACCCAAAGTGGTTTTT
1 AAGGCTCAACCATAACCTACAACAATGGTTTTTCACGGGCTCAACCAAAACCCAAAGTGGTTTTT
14384656 CA
66 CA
*
14384658 AAGGCTCAACCATAACCTTTC-ACAATGGTTTTTCACGGGCTCAACCAAAACCCAAAGTGGTTTT
1 AAGGCTCAACCATAACC-TACAACAATGGTTTTTCACGGGCTCAACCAAAACCCAAAGTGGTTTT
14384722 TCA
65 TCA
***
14384725 AAGGCTCAACCATAACCTACAACAATGGTTTTTCACAATCTCAACCAAAACCCAAAGTGGTTTTT
1 AAGGCTCAACCATAACCTACAACAATGGTTTTTCACGGGCTCAACCAAAACCCAAAGTGGTTTTT
*
14384790 AA
66 CA
* *
14384792 AAGGCTCAACCATAACCTACAACAATGGTTTTT-ACCGGGATCAACTAAAACCCAA
1 AAGGCTCAACCATAACCTACAACAATGGTTTTTCA-CGGGCTCAACCAAAACCCAA
14384847 CAACCAACTT
Statistics
Matches: 169, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
66 3 0.02
67 164 0.97
68 2 0.01
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.26
Consensus pattern (67 bp):
AAGGCTCAACCATAACCTACAACAATGGTTTTTCACGGGCTCAACCAAAACCCAAAGTGGTTTTT
CA
Found at i:14384836 original size:35 final size:34
Alignment explanation
Indices: 14384648--14384824 Score: 184
Period size: 35 Copynumber: 5.2 Consensus size: 34
14384638 AAACCCAAAG
*
14384648 TGGTTTTTCAAAGGCTCAACCATAACCTTTC-ACAA
1 TGGTTTTTCACAGGCTCAACCATAACC--TCAACAA
* * *
14384683 TGGTTTTTCACGGGCTCAACCAAAACC-CAA-AG
1 TGGTTTTTCACAGGCTCAACCATAACCTCAACAA
*
14384715 TGGTTTTTCAAAGGCTCAACCATAACCTACAACAA
1 TGGTTTTTCACAGGCTCAACCATAACCT-CAACAA
** * *
14384750 TGGTTTTTCACAATCTCAACCAAAACC-CAA-AG
1 TGGTTTTTCACAGGCTCAACCATAACCTCAACAA
* *
14384782 TGGTTTTTAAAAGGCTCAACCATAACCTACAACAA
1 TGGTTTTTCACAGGCTCAACCATAACCT-CAACAA
14384817 TGGTTTTT
1 TGGTTTTT
14384825 ACCGGGATCA
Statistics
Matches: 116, Mismatches: 19, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
32 49 0.42
33 4 0.03
34 6 0.05
35 57 0.49
ACGTcount: A:0.34, C:0.25, G:0.13, T:0.28
Consensus pattern (34 bp):
TGGTTTTTCACAGGCTCAACCATAACCTCAACAA
Found at i:14387409 original size:2 final size:2
Alignment explanation
Indices: 14387399--14387439 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
14387389 ACATATCTAC
*
14387399 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
14387440 NCATAGCTGA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:14387528 original size:42 final size:42
Alignment explanation
Indices: 14387441--14387556 Score: 137
Period size: 42 Copynumber: 2.8 Consensus size: 42
14387431 ATATATATAN
* *
14387441 CATAGCTGAGTCAGCATCGGCTTATGCGCACTCCCCCTTGAA
1 CATAGCAGGGTCAGCATCGGCTTATGCGCACTCCCCCTTGAA
* *
14387483 CATAGCAGGGTCAGTATCGGCTTATGCGCACT-CCCCTTGGCA
1 CATAGCAGGGTCAGCATCGGCTTATGCGCACTCCCCCTT-GAA
* * *
14387525 CATAACCA-GGTCAGCATCGGTTTATGCACACT
1 CAT-AGCAGGGTCAGCATCGGCTTATGCGCACT
14387557 TCAACTCACA
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
41 6 0.09
42 55 0.86
43 3 0.05
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.24
Consensus pattern (42 bp):
CATAGCAGGGTCAGCATCGGCTTATGCGCACTCCCCCTTGAA
Found at i:14394289 original size:42 final size:42
Alignment explanation
Indices: 14394242--14394437 Score: 177
Period size: 42 Copynumber: 4.7 Consensus size: 42
14394232 ATAATGATAT
* * * * *
14394242 TGACCTAGCTATGTGTGAGTTGAAGTGTGCATAAACCGATGC
1 TGACCTAGCTATGTGTAAGTGGGAGTGCGCATAAGCCGATGC
* * * *
14394284 TGACCTGGTTATGTGCCAAG-GGGAGTGCGCATAAGCCGATAC
1 TGACCTAGCTATGTG-TAAGTGGGAGTGCGCATAAGCCGATGC
*
14394326 TGACCCT-GCTATGT-TCAAGGGGGAGTGCGCATAAGCCGATGC
1 TGA-CCTAGCTATGTGT-AAGTGGGAGTGCGCATAAGCCGATGC
* * *
14394368 TGA-CTCAGCTATGTGTGAGTAGGAGTACGCATAAGCCGATGC
1 TGACCT-AGCTATGTGTAAGTGGGAGTGCGCATAAGCCGATGC
* *
14394410 TGACCCAGCCATGTGCT-AGTGGGAGTGC
1 TGACCTAGCTATGTG-TAAGTGGGAGTGC
14394438 ATATGAGCTG
Statistics
Matches: 125, Mismatches: 20, Indels: 18
0.77 0.12 0.11
Matches are distributed among these distances:
40 2 0.02
41 3 0.02
42 112 0.90
43 8 0.06
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.23
Consensus pattern (42 bp):
TGACCTAGCTATGTGTAAGTGGGAGTGCGCATAAGCCGATGC
Found at i:14402275 original size:40 final size:40
Alignment explanation
Indices: 14402224--14402329 Score: 137
Period size: 38 Copynumber: 2.7 Consensus size: 40
14402214 CTCATCCAAC
*
14402224 TCATCTGCATCCCCCCACATCGTGCACATAGTCGA-AGCCA
1 TCATATGCATCCCCCCACATCGTGCACATAGT-GAGAGCCA
* * *
14402264 TCATGTGCATCCCCCCACATCGTG--CATAGTTAGTGCCA
1 TCATATGCATCCCCCCACATCGTGCACATAGTGAGAGCCA
*
14402302 TCGTATGCATCCCCCCACATCGTGCACA
1 TCATATGCATCCCCCCACATCGTGCACA
14402330 CGGGCACTCT
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
37 1 0.02
38 32 0.55
40 25 0.43
ACGTcount: A:0.23, C:0.39, G:0.16, T:0.23
Consensus pattern (40 bp):
TCATATGCATCCCCCCACATCGTGCACATAGTGAGAGCCA
Found at i:14402451 original size:2 final size:2
Alignment explanation
Indices: 14402444--14402477 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
14402434 CCAATGCACA
* *
14402444 AT AT AT AT AT AT GT AC AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14402478 CAACATAATG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:14403541 original size:19 final size:21
Alignment explanation
Indices: 14403519--14403557 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
14403509 TCTTTTCTTC
14403519 CTTTC-CTAT-TCCTTTCTCT
1 CTTTCTCTATCTCCTTTCTCT
*
14403538 CTTTCTCTTTCTCCTTTCTC
1 CTTTCTCTATCTCCTTTCTC
14403558 CCGTTGGTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 3 0.18
21 9 0.53
ACGTcount: A:0.03, C:0.38, G:0.00, T:0.59
Consensus pattern (21 bp):
CTTTCTCTATCTCCTTTCTCT
Found at i:14404004 original size:20 final size:21
Alignment explanation
Indices: 14403966--14404012 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
14403956 CACTACTTGG
*
14403966 CTTTT-CTCTTCTTTTCTTTC
1 CTTTTGCTCTTCTTTGCTTTC
14403986 CTTTTGCTCTT-TTTGCTTTC
1 CTTTTGCTCTTCTTTGCTTTC
14404006 CTTTTGC
1 CTTTTGC
14404013 CCTCTTATGC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 20 0.80
21 5 0.20
ACGTcount: A:0.00, C:0.28, G:0.06, T:0.66
Consensus pattern (21 bp):
CTTTTGCTCTTCTTTGCTTTC
Found at i:14406560 original size:35 final size:35
Alignment explanation
Indices: 14406512--14406653 Score: 157
Period size: 35 Copynumber: 4.1 Consensus size: 35
14406502 TCGAAAGTGA
*
14406512 TTTTTCAAAGGCTCAACCACAACCTTTC-ACAATGG
1 TTTTTCAAAGGCTCAACCACAACC-TACAACAATGG
** *
14406547 TTTTTCACGGGCTCAACCACAACCTACAACAATAG
1 TTTTTCAAAGGCTCAACCACAACCTACAACAATGG
** * * *
14406582 TTTTTCATTGGCTCAATCAAAACC--CAA-AGTGG
1 TTTTTCAAAGGCTCAACCACAACCTACAACAATGG
*
14406614 CTTTTCAAAGGCTCAACCACAACCTACAACAATGG
1 TTTTTCAAAGGCTCAACCACAACCTACAACAATGG
14406649 TTTTT
1 TTTTT
14406654 ACTGGGATCA
Statistics
Matches: 86, Mismatches: 17, Indels: 8
0.77 0.15 0.07
Matches are distributed among these distances:
32 22 0.26
33 3 0.03
34 5 0.06
35 56 0.65
ACGTcount: A:0.32, C:0.27, G:0.12, T:0.28
Consensus pattern (35 bp):
TTTTTCAAAGGCTCAACCACAACCTACAACAATGG
Found at i:14406619 original size:102 final size:102
Alignment explanation
Indices: 14406477--14406672 Score: 263
Period size: 102 Copynumber: 1.9 Consensus size: 102
14406467 CCTTTCACAC
* * * *
14406477 TAGTTTTTCATGGGCTAAACTAAAATCGAAAGTGATTTTTCAAAGGCTCAACCACAACCTTTC-A
1 TAGTTTTTCATGGGCTAAACTAAAACCCAAAGTGACTTTTCAAAGGCTCAACCACAACC-TACAA
* *
14406541 CAATGGTTTTTCAC-GGGCTCAACCACAACCTACAACAA
65 CAATGGTTTTT-ACTGGGATCAACCAAAACCTACAACAA
* * *
14406579 TAGTTTTTCATTGGCTCAA-TCAAAACCCAAAGTGGCTTTTCAAAGGCTCAACCACAACCTACAA
1 TAGTTTTTCATGGGCTAAACT-AAAACCCAAAGTGACTTTTCAAAGGCTCAACCACAACCTACAA
14406643 CAATGGTTTTTACTGGGATCAACCAAAACC
65 CAATGGTTTTTACTGGGATCAACCAAAACC
14406673 CAACAACCAA
Statistics
Matches: 82, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
101 5 0.06
102 77 0.94
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (102 bp):
TAGTTTTTCATGGGCTAAACTAAAACCCAAAGTGACTTTTCAAAGGCTCAACCACAACCTACAAC
AATGGTTTTTACTGGGATCAACCAAAACCTACAACAA
Found at i:14421910 original size:11 final size:11
Alignment explanation
Indices: 14421878--14421904 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
14421868 CGTTCTTCTT
14421878 TTCTTCCTTTG
1 TTCTTCCTTTG
14421889 TTCTTCCTTTG
1 TTCTTCCTTTG
14421900 TTCTT
1 TTCTT
14421905 GTTTTGGCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.00, C:0.26, G:0.07, T:0.67
Consensus pattern (11 bp):
TTCTTCCTTTG
Found at i:14425482 original size:33 final size:33
Alignment explanation
Indices: 14425438--14425504 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
14425428 TGTTTTAATG
14425438 TTGTGAAATGTGTAAAAGGATGAATCCAAGTGC
1 TTGTGAAATGTGTAAAAGGATGAATCCAAGTGC
*
14425471 TTGTGACATGTGTAAAAGGATGAATCCAAGTGC
1 TTGTGAAATGTGTAAAAGGATGAATCCAAGTGC
14425504 T
1 T
14425505 CTTATATCAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.34, C:0.10, G:0.27, T:0.28
Consensus pattern (33 bp):
TTGTGAAATGTGTAAAAGGATGAATCCAAGTGC
Found at i:14428249 original size:73 final size:72
Alignment explanation
Indices: 14428111--14428252 Score: 203
Period size: 73 Copynumber: 2.0 Consensus size: 72
14428101 GCTTCAGTGC
* * * *
14428111 TTTAATGCCACCCATCAAGATTACTCTAGGTGATGCCATCCGTTGGGAGATTACTCTAGATGATG
1 TTTAATGCCACCCATCAAGATTACTCTAGGTGATGCCATCCATTGGGAGATTACTCCAAACGATG
14428176 ACTTGTA
66 ACTTGTA
* * * *
14428183 TTTAATGCCACCCATTTAAGATTACTCTCGGTGATGTCATCCATTGGGAGCTTACTCCAAACGAT
1 TTTAATGCCACCCA-TCAAGATTACTCTAGGTGATGCCATCCATTGGGAGATTACTCCAAACGAT
14428248 GACTT
65 GACTT
14428253 TGATTCTTTG
Statistics
Matches: 61, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
72 14 0.23
73 47 0.77
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (72 bp):
TTTAATGCCACCCATCAAGATTACTCTAGGTGATGCCATCCATTGGGAGATTACTCCAAACGATG
ACTTGTA
Found at i:14434378 original size:2 final size:2
Alignment explanation
Indices: 14434371--14434395 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
14434361 NNNNNNNNNN
14434371 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
14434396 GTAAATATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14434773 original size:39 final size:40
Alignment explanation
Indices: 14434694--14434786 Score: 107
Period size: 39 Copynumber: 2.4 Consensus size: 40
14434684 CTGTAGCTTC
* * * * ***
14434694 TCGCTGCAGCTAGAAACTTTCTATTTTCTGGGTTTCAATT
1 TCGCTGCAGCGAGAAACATTCTAGTTTCTAGGTAGAAATT
14434734 TCGCTGCAGCGAGAAACATTCT-GTTTCTAGGTAGAAATT
1 TCGCTGCAGCGAGAAACATTCTAGTTTCTAGGTAGAAATT
*
14434773 TCGCTGCAACGAGA
1 TCGCTGCAGCGAGA
14434787 TTCAATTTCG
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
39 25 0.56
40 20 0.44
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (40 bp):
TCGCTGCAGCGAGAAACATTCTAGTTTCTAGGTAGAAATT
Found at i:14447842 original size:94 final size:93
Alignment explanation
Indices: 14447681--14447861 Score: 353
Period size: 94 Copynumber: 1.9 Consensus size: 93
14447671 TCCACAATAG
14447681 ATTAGAGGTACTCGAATTCATGAAAACTAAAAAATTTAGACTCAAGATCTAAAATTACCATTTTA
1 ATTAGAGGTACTCGAATTCATGAAAACTAAAAAATTTAGACTCAAGATCTAAAATTACCATTTTA
14447746 CCCCTAAAGTGGAAATCATTTTTTTTTT
66 CCCCTAAAGTGGAAATCATTTTTTTTTT
14447774 NATTAGAGGTACTCGAATTCATGAAAACTAAAAAATTTAGACTCAAGATCTAAAATTACCATTTT
1 -ATTAGAGGTACTCGAATTCATGAAAACTAAAAAATTTAGACTCAAGATCTAAAATTACCATTTT
14447839 ACCCCTAAAGTGGAAATCATTTT
65 ACCCCTAAAGTGGAAATCATTTT
14447862 GATTTTTTTT
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
94 87 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.33
Consensus pattern (93 bp):
ATTAGAGGTACTCGAATTCATGAAAACTAAAAAATTTAGACTCAAGATCTAAAATTACCATTTTA
CCCCTAAAGTGGAAATCATTTTTTTTTT
Found at i:14469254 original size:125 final size:125
Alignment explanation
Indices: 14469063--14469287 Score: 355
Period size: 125 Copynumber: 1.8 Consensus size: 125
14469053 ACAAAAGTTG
* * * *
14469063 AAGGGCGTGGGGCTTGGGGCAACACAGTGGCAACCTGCAGGGCGTGGCTGTGGCTGGGTGTCTGG
1 AAGGGCGTGGGGCTTAGGGCAACACAGAGGCAACCGGCAGGGCGTGGCTGTGGCTGGGAGTCTGG
14469128 GGAGAAAAGAAAGAAGAACGAGCCGAGCGTGGCATGGTGAGCTGTCAACTAGGGAAGAAT
66 GGAGAAAAGAAAGAAGAACGAGCCGAGCGTGGCATGGTGAGCTGTCAACTAGGGAAGAAT
*
14469188 AAGGGCGTGGGGCTTAGGG-AGACACCGAGGCAACCGGCAGGGCGTGGCTGTGGCTGGGCAGT-T
1 AAGGGCGTGGGGCTTAGGGCA-ACACAGAGGCAACCGGCAGGGCGTGGCTGTGGCTGGG-AGTCT
* *
14469251 GGGGAGAAAAGAAAGATGAAGGAGCCGAGCGTGGCAT
64 GGGGAGAAAAGAAAGAAGAACGAGCCGAGCGTGGCAT
14469288 CGTAGGTCGG
Statistics
Matches: 91, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
124 1 0.01
125 88 0.97
126 2 0.02
ACGTcount: A:0.25, C:0.17, G:0.44, T:0.14
Consensus pattern (125 bp):
AAGGGCGTGGGGCTTAGGGCAACACAGAGGCAACCGGCAGGGCGTGGCTGTGGCTGGGAGTCTGG
GGAGAAAAGAAAGAAGAACGAGCCGAGCGTGGCATGGTGAGCTGTCAACTAGGGAAGAAT
Done.